Command line: [exonerate -m p2g --showtargetgff -q ../Sel.human/EEFSEC.fa -t gi|397462090|gb|JH733411.1|subseq.fa -E]
Hostname: [ws101065]
C4 Alignment:
------------
Query: SPP00000144_2.0 # Protein # Eukaryotic elongation factor (eEFSec) # Human (Homo sapiens)
Target: gi|397462090|gb|JH733411.1|:subseq(110221,245320) Alligator mississippiensis unplaced genomic scaffold scaffold-3859, whole genome shotgun sequence
Model: protein2genome:local
Raw score: 105
Query range: 179 -> 438
Target range: 8247 -> 244565
180 : ProIleIleProValAlaAlaLysProGlyGlyProGluAlaProGluThrGluAlaP : 199
||| !||| !!:!! !! ! ||||||..! !.!. !||| !.!!!:||||
ProProIleSerMetProLeuCysProGlySerCysHisMetProThrAsnAspAlaP
8248 : CCTCCAATTTCCATGCCACTCTGTCCAGGCTCTTGTCACATGCCCACCAATGATGCAC : 8305
200 : roGln{G} >>>> Target Intron 1 >>>> {ly}IleProGluLeuIleGl : 207
||:!!{|} 10742 bp {||}! !|||!!::!!.!!:!
roLys{G}++ ++{ly}ThrProAspIlePheGl
8306 : CTAAG{G}gt.........................ag{GA}ACACCTGATATCTTTCA : 19071
208 : uLeuLeuThrSer >>>> Target Intron 2 >>>> GlnIleSerIleProT : 217
!||||||! !!:! 20938 bp !!.:!:..! ! !!
nLeuLeuArgAsn++ ++HisValGlnTyrSerM
19072 : ACTGCTGAGAAATgt.........................agCACGTGCAATACAGCA : 40039
218 : hrArgAspPro{Se} >>>> Target Intron 3 >>>> {r}GlyProPheLe : 225
!|||||| !{!.} 4473 bp {!}||| !!|||!
etArgAspSer{Ly}++ ++{s}GlySerPheSe
40040 : TGCGTGATAGC{AA}gt.........................ag{A}GGCTCCTTCTC : 44536
226 : uMetSerValAspHisCysPheSer >>>> Target Intron 4 >>>> IleL : 235
!! ||| !..!:!!|||!:!!.! 9363 bp :!:|
rLysSerTyrSerTyrCysTyrLys++ -+LeuL
44537 : AAAATCTTACTCCTACTGTTATAAAgt.........................cgCTGA : 53929
236 : ysGlyGlnGlyThrValMetThrGlyThrIleLeuSerGlySerIleSerLeuGlyAs : 254
||..!!:!|||!.!||| ! !! !:!!:!:! !||| !:!!! !! !:!!|||||
ysSerArgGlyAsnValTrpProGlnSerLeuSerSerGlnAlaThrTyrValGlyAs
53930 : AGTCACGGGGGAACGTGTGGCCTCAGTCCCTGTCAAGTCAGGCCACATATGTAGGTGA : 53986
255 : pSerValGluIleProAlaLeuLysValValLysLysVal >>>> Target Intr : 268
| !:!! !! !||| !|||!:! ! ! !! ! 11175 b
pHisMet***AlaProGlnLeuArgLysAsn***PheGln++
53987 : CCACATGTAGGCACCACAATTAAGAAAAAATTAATTTCAAgt................ : 54030
269 : on 5 >>>> LysSerMetGlnMetPheHisMetProIleThrSerAlaMetGlnGl : 283
p !|||:!! :!: !|||||| !!|||:!!:!! !|||!!.
++ProSerValCysLeuProHisMetSerIleSerAlaAsnMetHisHi
54031 : .........agCCAAGCGTGTGCTTACCTCATATGTCCATCTCTGCAAATATGCATCA : 65248
284 : yAspArgLeuGlyIleCysValThrGlnPheAspProLysLeuLeuGlu{Ar} >>> : 300
! ! !!||| ! !|||:!! ! .!.! !!!!.||||||! {||}
sPro***LeuThrAlaCysLeuGlyAlaMetGlyAlaAsnLeuLeuGly{Ar}++
65249 : TCCCTGACTTACAGCATGCCTCGGCGCTATGGGGGCCAACCTTCTTGGC{AG}gt... : 65303
301 : > Target Intron 6 >>>> {g} >>>> Target Intron 7 >>>> Gl : 301
17134 bp {|} 2391 bp ||
++{g}++ ++Gl
65304 : ......................ag{G}gt.........................agGG : 84827
302 : yLeuValCysAlaProGlu{S} >>>> Target Intron 8 >>>> {er}Leu : 309
|||| !|||..!||| !{|} 18110 bp {||}:!!
yLeuProCysCysProLeu{S}-+ ++{er}Ile
84828 : CCTGCCCTGCTGCCCCCTA{A}tt.........................ag{GT}ATA : 102961
310 : HisThrVal{Hi} >>>> Target Intron 9 >>>> {s}AlaAlaLeuIleS : 318
||| !:!!{ } 7573 bp { }..! !! !:!!|
HisGlyMet{Gl}++ ++{y}CysProSerValS
102962 : CATGGAATG{GG}gt.........................ag{A}TGTCCCAGTGTAT : 110561
319 : erValGluLysIleProTyrPheArgGlyProLeuGlnThrLysAlaLysPheHisIl : 337
|| !..!|||:!!||||||.!. ! !! !||| ! ||| !! !!:! ! !
erTyrArgLysValProTyrLeuSerHisLeuLeuTyrThrCysMetThrTyrLysTh
110562 : CTTACAGAAAAGTACCATATCTGTCTCACCTTTTATATACCTGCATGACATACAAGAC : 110618
338 : eThrValGlyHis{G} >>>> Target Intron 10 >>>> {lu}ThrValMe : 345
!|||||| !! ! {.} 15290 bp {..}|||:!!:!
rThrValTrpLys{A}-+ ++{rg}ThrMetLe
110619 : AACGGTCTGGAAA{C}at..........................ag{GC}ACAATGCT : 125932
346 : tGlyArgLeuMetPhePheSerProAlaProAspAsnPheAspGlnGluPro >>>> : 363
:! ! ! !|||||||||!:! !!||| !! !!!.. ! !|||:!! !
uGluLeuAlaMetPhePheAsnThrAlaThrHisThrHisIleGlnGlnLys++
125933 : TGAGTTGGCAATGTTTTTCAACACGGCCACACACACACACATCCAGCAAAAGgt.... : 125988
364 : Target Intron 11 >>>> IleLeuAspSerPheAsnPheSerGlnGluTyrL : 374
5657 bp !:!! !.! !! !||| !!.!.... !|
++GluValMetLysHisIlePheProAspSerIleL
125989 : ......................agGAAGTTATGAAACACATTTTCCCTGACAGCATTC : 131676
375 : euPheGlnGluGlnTyrLeuSerLys{A} >>>> Target Intron 12 >>>> : 383
||!::::!:!!...! ||| !|||{|} 29224 bp
euTrpArgLysSerSerLeuHisLys{A}++ +
131677 : TCTGGAGAAAAAGTTCACTTCATAAA{G}gt..........................a : 160926
384 : {sp}LeuThrPro{Al} >>>> Target Intron 13 >>>> {a}ValThrA : 390
{||} !.!!|||{ } 39314 bp {!} !.!!|
+{sp}ThrAlaPro{Tr}++ ++{p}LysAlaA
160927 : g{AT}ACTGCCCCA{TG}gt..........................ag{G}AAAGCTG : 200262
391 : spAsnAspGluAlaAspLysLysAlaGlyGlnAlaThrGluGlyHisCysProArgGl : 409
|| !|||:!! ! !:! ||||||:!!||| !..!! !||| !||||||::
spPheAspLysLeuArgArgLeuAlaGlyGluAlaLeuArgAspHisAspProArgAr
200263 : ACTTTGACAAGCTCAGGAGGCTTGCTGGTGAGGCCCTAAGGGATCACGACCCAAGGAG : 200319
410 : n >>>> Target Intron 14 >>>> GlnTrpAlaLeu >>>> Target I : 414
! 28071 bp :!! ! !:!! 765
g+- ++LysHisGluMet++
200320 : Ggg..........................agAAACATGAGATGgt............. : 228407
415 : ntron 15 >>>> ValGluPheGluLysProVal >>>> Target Intron 1 : 421
5 bp |||:!! !!:!!||||||:!! 8431 bp
-+ValLysValLysLysProMet++
228408 : .............ggGTTAAAGTTAAAAAACCCATGgt.................... : 236083
422 : 6 >>>> ThrCysProArgLeuCysLeuValIleGlySerArgLeuAspAlaAspIl : 437
!|||||||||||||||||| !:!: !! ! !!|||..!|||..!:!
-+LeuCysProArgLeuCysLeuHisLeuCysValCysLeuSerAlaSerLe
236084 : ......tgCTGTGTCCACGTCTGTGTCTGCATCTGTGTGTTTGTCTGTCTGCATCTCT : 244560
438 : eHis : 438
:|||
uHis
244561 : GCAC : 244565
vulgar: SPP00000144_2.0 179 438 . gi|397462090|gb|JH733411.1|:subseq(110221,245320) 8247 244565 + 105 M 21 63 S 0 1 5 0 2 I 0 10738 3 0 2 S 1 2 M 10 30 5 0 2 I 0 20934 3 0 2 M 9 27 S 0 2 5 0 2 I 0 4469 3 0 2 S 1 1 M 12 36 5 0 2 I 0 9359 3 0 2 M 34 102 5 0 2 I 0 11171 3 0 2 M 32 96 S 0 2 5 0 2 I 0 17130 3 0 2 S 1 1 5 0 2 I 0 2387 3 0 2 M 7 21 S 0 1 5 0 2 I 0 18106 3 0 2 S 1 2 M 4 12 S 0 2 5 0 2 I 0 7569 3 0 2 S 1 1 M 28 84 S 0 1 5 0 2 I 0 15286 3 0 2 S 1 2 M 20 60 5 0 2 I 0 5653 3 0 2 M 20 60 S 0 1 5 0 2 I 0 29220 3 0 2 S 1 2 M 3 9 S 0 2 5 0 2 I 0 39310 3 0 2 S 1 1 M 22 66 5 0 2 I 0 28067 3 0 2 M 4 12 5 0 2 I 0 7651 3 0 2 M 7 21 5 0 2 I 0 8427 3 0 2 M 18 54
# --- START OF GFF DUMP ---
#
#
##gff-version 2
##source-version exonerate:protein2genome:local 2.2.0
##date 2013-11-25
##type DNA
#
#
# seqname source feature start end score strand frame attributes
#
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local gene 8248 244565 105 + . gene_id 1 ; sequence SPP00000144_2.0 ; gene_orientation +
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local cds 8248 8311 . + .
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local exon 8248 8311 . + . insertions 0 ; deletions 0
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice5 8312 8313 . + . intron_id 1 ; splice_site "GT"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local intron 8312 19053 . + . intron_id 1
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice3 19052 19053 . + . intron_id 0 ; splice_site "AG"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local cds 19054 19085 . + .
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local exon 19054 19085 . + . insertions 0 ; deletions 0
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice5 19086 19087 . + . intron_id 2 ; splice_site "GT"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local intron 19086 40023 . + . intron_id 2
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice3 40022 40023 . + . intron_id 1 ; splice_site "AG"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local cds 40024 40052 . + .
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local exon 40024 40052 . + . insertions 0 ; deletions 0
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice5 40053 40054 . + . intron_id 3 ; splice_site "GT"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local intron 40053 44525 . + . intron_id 3
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice3 44524 44525 . + . intron_id 2 ; splice_site "AG"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local cds 44526 44562 . + .
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local exon 44526 44562 . + . insertions 0 ; deletions 0
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice5 44563 44564 . + . intron_id 4 ; splice_site "GT"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local intron 44563 53925 . + . intron_id 4
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice3 53924 53925 . + . intron_id 3 ; splice_site "CG"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local cds 53926 54027 . + .
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local exon 53926 54027 . + . insertions 0 ; deletions 0
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice5 54028 54029 . + . intron_id 5 ; splice_site "GT"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local intron 54028 65202 . + . intron_id 5
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice3 65201 65202 . + . intron_id 4 ; splice_site "AG"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local cds 65203 65300 . + .
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local exon 65203 65300 . + . insertions 0 ; deletions 0
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice5 65301 65302 . + . intron_id 6 ; splice_site "GT"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local intron 65301 82434 . + . intron_id 6
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice3 82433 82434 . + . intron_id 5 ; splice_site "AG"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local cds 82435 82435 . + .
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local exon 82435 82435 . + . insertions 0 ; deletions 0
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice5 82436 82437 . + . intron_id 7 ; splice_site "GT"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local intron 82436 84826 . + . intron_id 7
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice3 84825 84826 . + . intron_id 6 ; splice_site "AG"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local cds 84827 84848 . + .
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local exon 84827 84848 . + . insertions 0 ; deletions 0
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice5 84849 84850 . + . intron_id 8 ; splice_site "TT"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local intron 84849 102958 . + . intron_id 8
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice3 102957 102958 . + . intron_id 7 ; splice_site "AG"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local cds 102959 102974 . + .
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local exon 102959 102974 . + . insertions 0 ; deletions 0
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice5 102975 102976 . + . intron_id 9 ; splice_site "GT"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local intron 102975 110547 . + . intron_id 9
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice3 110546 110547 . + . intron_id 8 ; splice_site "AG"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local cds 110548 110633 . + .
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local exon 110548 110633 . + . insertions 0 ; deletions 0
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice5 110634 110635 . + . intron_id 10 ; splice_site "AT"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local intron 110634 125923 . + . intron_id 10
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice3 125922 125923 . + . intron_id 9 ; splice_site "AG"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local cds 125924 125985 . + .
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local exon 125924 125985 . + . insertions 0 ; deletions 0
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice5 125986 125987 . + . intron_id 11 ; splice_site "GT"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local intron 125986 131642 . + . intron_id 11
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice3 131641 131642 . + . intron_id 10 ; splice_site "AG"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local cds 131643 131703 . + .
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local exon 131643 131703 . + . insertions 0 ; deletions 0
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice5 131704 131705 . + . intron_id 12 ; splice_site "GT"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local intron 131704 160927 . + . intron_id 12
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice3 160926 160927 . + . intron_id 11 ; splice_site "AG"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local cds 160928 160940 . + .
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local exon 160928 160940 . + . insertions 0 ; deletions 0
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice5 160941 160942 . + . intron_id 13 ; splice_site "GT"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local intron 160941 200254 . + . intron_id 13
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice3 200253 200254 . + . intron_id 12 ; splice_site "AG"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local cds 200255 200321 . + .
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local exon 200255 200321 . + . insertions 0 ; deletions 0
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice5 200322 200323 . + . intron_id 14 ; splice_site "GG"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local intron 200322 228392 . + . intron_id 14
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice3 228391 228392 . + . intron_id 13 ; splice_site "AG"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local cds 228393 228404 . + .
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local exon 228393 228404 . + . insertions 0 ; deletions 0
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice5 228405 228406 . + . intron_id 15 ; splice_site "GT"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local intron 228405 236059 . + . intron_id 15
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice3 236058 236059 . + . intron_id 14 ; splice_site "GG"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local cds 236060 236080 . + .
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local exon 236060 236080 . + . insertions 0 ; deletions 0
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice5 236081 236082 . + . intron_id 16 ; splice_site "GT"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local intron 236081 244511 . + . intron_id 16
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice3 244510 244511 . + . intron_id 15 ; splice_site "TG"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local cds 244512 244565 . + .
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local exon 244512 244565 . + . insertions 0 ; deletions 0
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local similarity 8248 244565 105 + . alignment_id 1 ; Query SPP00000144_2.0 ; Align 8248 180 63 ; Align 19056 202 30 ; Align 40024 212 27 ; Align 44527 222 36 ; Align 53926 234 102 ; Align 65203 268 96 ; Align 84827 301 21 ; Align 102961 309 12 ; Align 110549 314 84 ; Align 125926 343 60 ; Align 131643 363 60 ; Align 160930 384 9 ; Align 200256 388 66 ; Align 228393 410 12 ; Align 236060 414 21 ; Align 244512 421 54
# --- END OF GFF DUMP ---
#
C4 Alignment:
------------
Query: SPP00000144_2.0 # Protein # Eukaryotic elongation factor (eEFSec) # Human (Homo sapiens)
Target: gi|397462090|gb|JH733411.1|:subseq(110221,245320) Alligator mississippiensis unplaced genomic scaffold scaffold-3859, whole genome shotgun sequence
Model: protein2genome:local
Raw score: 101
Query range: 65 -> 374
Target range: 1138 -> 244186
66 : SerSerLeuProGluPheGln{Al} >>>> Target Intron 1 >>>> {a}A : 74
|||||||||||||||!::|||{!.} 10974 bp {!}
SerSerLeuProGluTrpGln{Va}++ ++{l}T
1139 : AGTTCTCTTCCTGAGTGGCAG{GT}gt.........................ag{G}T : 12137
75 : laProGluAlaGluProGluProGlyGluProLeuLeuGlnValThrLeuValAspCy : 93
! !.!. !:!! ! !|||.!!...||| !||| ..! !!!!:!! ||
yrIleHisTyrLysArgLeuProSerSerProGluLeuCysThrGlyPheMetMetCy
12138 : ATATTCATTACAAAAGGCTGCCAAGCTCTCCCGAGCTGTGCACTGGTTTCATGATGTG : 12194
94 : sPro >>>> Target Intron 2 >>>> GlyHisAlaSerLeuIleArgThrI : 103
|||| 11111 bp ||||||:!!.!!! !!!: !.!!.
sPro++ ++GlyHisSerGlyCysMetAlaAlaP
12195 : CCCGgt.........................agGGTCATTCTGGTTGCATGGCAGCGT : 23335
104 : leIle{G} >>>> Target Intron 3 >>>> {ly}GlyAlaGlnIleIleAs : 111
!!:!!{|} 3987 bp {||} !|||.!.:!:! !
heLeu{G}++ ++{ly}***AlaAsnValThrAr
23336 : TCTTA{G}gt.........................ag{GT}TAGGCTAATGTGACTAG : 27346
112 : pLeuMetMetLeuValIleAspValThrLysGlyMetGlnThrGlnSerAla{G} > : 129
|||! ..!!!!|||||| !|||... !:!:.!. !:!!!:!|||{|}
gLeuAsnGlnPheValIleThrGlnThrSerProLeuAsp***GluAsnAla{G}+-
27347 : GCTGAATCAGTTTGTAATCACACAGACATCCCCTCTTGACTGAGAAAATGCA{G}gc. : 27403
130 : >>> Target Intron 4 >>>> {lu}CysLeuValIleGlyGlnIle{A} >> : 137
14845 bp {||} !|||! !.!!..! :!!{|}
++{lu}LeuLeuAspPheAsnIleLeu{A}++
27404 : ........................ag{AG}CTCCTTGACTTCAATATTTTA{G}gt.. : 42272
138 : >> Target Intron 5 >>>> {la}CysGlnLysLeuValValValLeuAsnLy : 147
17087 bp {||} ! ! ! !|||:!!..!:!!|||!:
++{la}IleThrAspTyrValIleThrIleAsnAr
42273 : .......................ag{CC}ATAACAGACTATGTTATTACTATCAATAG : 59386
148 : sIleAspLeuLeuProGluGly >>>> Target Intron 6 >>>> LysArg{ : 157
!! ! !||||||.!. ! 45456 bp !:!!:!{
gAsnMetSerLeuProHisLeu++ ++ArgLys{
59387 : AAACATGAGCTTACCACACCTGgt.........................agAGAAAA{ : 104872
158 : G} >>>> Target Intron 7 >>>> {ln}AlaAlaIleAspLysMetThrLy : 165
.} 24447 bp {!.}!.! !:!:|||!!..!. !||
A}++ ++{sp}ValHisLeuAspAsnPheLeuLy
104873 : G}gt.........................ag{AT}GTGCACCTGGATAATTTTCTCAA : 129343
166 : sLysMetGlnLysThrLeu{G} >>>> Target Intron 8 >>>> {lu}Asn : 173
|:!!:!:! :!! !! !{|} 3393 bp {||}.!.
sGluLeuProGlnAspArg{G}++ +-{lu}Gln
129344 : AGAGCTTCCCCAGGACCGA{G}gt.........................ac{AG}CAA : 132760
174 : ThrLysPheArgGlyAlaProIleIleProVal{A} >>>> Target Intron 9 : 185
!..!|||! !! !|||! !:!!!!:|||..!{!} 4901 bp
LeuSerPheThrValAlaHisLeuMetProThr{G}-+
132761 : CTCTCATTCACAGTAGCCCACTTAATGCCCACA{G}tt.................... : 132799
186 : >>>> {la}AlaLysProGlyGlyProGluAlaProGluThrGluAla{P} >>> : 199
{.!}::! !|||!.!..!||| !||| !||| !...|||{ }
+-{ly}SerLeuProAlaSerProThrAlaGlyGluArgSerAla{A}++
132800 : .....at{GG}AGCCTGCCTGCCTCTCCCACAGCCGGGGAGCGATCTGCT{G}gt... : 137742
200 : > Target Intron 10 >>>> {ro}GlnGlyIleProGluLeuIleGlu >>> : 208
2205 bp { !}! !.!:!!||||||! !!!:|||
++{sp}ProAlaLeuProGluGlnMetGlu++
137743 : .......................ag{AT}CCTGCACTCCCTGAGCAAATGGAAgt... : 139973
209 : > Target Intron 11 >>>> LeuLeuThrSer >>>> Target Intron : 212
2136 bp ! !||| !..! 12583 bp
++ProLeuCysGlu++
139974 : .......................agCCCCTGTGTGAGgt................... : 142121
213 : 12 >>>> GlnIleSerIleProThrArgAspProSerGlyProPheLeuMetSerV : 228
... !|||:!!|||||| ! ! |||||| !|||.!.:!!:!: !!
+-SerSerSerLeuProThrPheLysProSerGlnProLeuIleLeuProP
142122 : .......acTCCTCTTCACTCCCTACATTCAAACCCTCGCAGCCCCTGATTCTTCCTC : 154750
229 : alAspHisCysPheSerIleLysGlyGlnGlyThrValMetThrGlyThrIleLeuSe : 247
! !:!!|||.!!!.!! !!.. !!..!.!!||| !! |||||||||! ! !!!
roProAsnCysLeuLysThrSerArgMetSerThrLysArgThrGlyThrThrGluAr
154751 : CTCCCAACTGCCTCAAAACCAGCAGGATGAGCACTAAGAGAACTGGAACCACTGAGAG : 154807
248 : rGlySerIle{Se} >>>> Target Intron 13 >>>> {r}LeuGlyAspSe : 255
!! !||| !{..} 2897 bp {!}||| !:!!..
gGluSerGly{Gl}+- +-{u}LeuPheAsnGl
154808 : AGAGAGTGGA{GA}ga..........................at{G}TTGTTTAATGA : 157728
256 : rValGluIleProAlaLeuLysValValLysLysValLysSerMetGlnMet{Ph} : 273
!:!!! !:!:||| !:!!|||..!|||!!.!:!:!!!..!!!|||... { }
uIleValValProTyrIleLysThrValAsnArgMetSerCysMetSerTyr{Se}++
157729 : AATAGTGGTGCCATATATTAAAACAGTTAACAGGATGAGTTGCATGAGTTAT{AG}gt : 157784
274 : >>>> Target Intron 14 >>>> {e}HisMetProIleThrSerAlaMetGln : 282
61776 bp {!}||| ||| !!!!.!!:!!|||
++{r}HisProProProGlyCysThrLeuGln
157785 : ..........................ag{C}CACCCACCACCGGGCTGCACTCTGCAG : 219585
283 : GlyAspArgLeuGlyIleCysValThrGlnPheAspProLysLeuLeuGluArgGlyL : 302
|||! !! ! ! !|||!.! ! ! !!||| ! |||! !...! !|||!
GlyGlyTrpSerGlnGlyCysAlaGlnGlyGlyTyrProTyrLeuHisSerProGlyS
219586 : GGTGGGTGGAGCCAGGGCTGTGCTCAGGGTGGTTATCCCTACCTACACAGCCCTGGCT : 219645
303 : euValCysAlaProGluSer{L} >>>> Target Intron 15 >>>> {eu}H : 310
! !||| !!||||||..!{:} 17866 bp {!!}:
erSerCysProProGluGln{M}++ ++{et}A
219646 : CCTCCTGCCCCCCAGAGCAA{A}gt..........................ag{TG}A : 237535
311 : isThrValHisAlaAlaLeuIleSerValGluLysIleProTyrPheArgGlyProLe : 329
!!|||!.! ! ! ! !!!|||! !:! |||! !!!.!:!||| !!:!
snThrAlaAlaLysTrpLysGlnThrValAlaArgGlnProSerLeuLysGlyThrVa
237536 : ACACAGCAGCAAAGTGGAAACAGACAGTGGCCAGGCAGCCTTCTTTGAAAGGAACTGT : 237592
330 : uGlnThrLys{A} >>>> Target Intron 16 >>>> {la}LysPheHisIl : 337
! !||||||{!} 3656 bp { !} ||| !||
lGlyThrLys{G}++ ++{lu}PhePhePheIl
237593 : AGGGACAAAA{G}gt..........................ag{AA}TTTTTTTTTAT : 241272
338 : eThrValGly{Hi} >>>> Target Intron 17 >>>> {s}GluThr{V} : 344
| ! !|||{||} 2297 bp {|}.!.|||{!}
eLeuHisGly{Hi}++ ++{s}HisThr{A}++
241273 : ACTTCATGGT{CA}gt..........................ag{T}CATACA{G}gt : 243591
345 : >>>> Target Intron 18 >>>> {al}MetGlyArgLeuMetPhePheSerPr : 353
504 bp {.!}! !!:! !:!:||||||.!!||
++{la}SerThrGlnAlaLeuPhePheGlyPr
243592 : ..........................ag{CA}AGCACACAGGCCCTTTTTTTTGGTCC : 244121
354 : oAlaProAspAsnPheAspGlnGluProIleLeuAspSerPheAsnPheSerGlnGlu : 372
| !||| .!! !! !! !|||:!! ! ||| ! !:::!!!::...
oLeuProThrValLeuIleLeuValProValLysThrSerProMetTrpAlaArgSer
244122 : ACTCCCCACAGTACTTATTCTGGTACCAGTAAAGACATCCCCAATGTGGGCCCGCTCC : 244178
373 : TyrLeu : 374
!::|||
TrpLeu
244179 : TGGCTG : 244186
vulgar: SPP00000144_2.0 65 374 . gi|397462090|gb|JH733411.1|:subseq(110221,245320) 1138 244186 + 101 M 7 21 S 0 2 5 0 2 I 0 10970 3 0 2 S 1 1 M 21 63 5 0 2 I 0 11107 3 0 2 M 10 30 S 0 1 5 0 2 I 0 3983 3 0 2 S 1 2 M 23 69 S 0 1 5 0 2 I 0 14841 3 0 2 S 1 2 M 7 21 S 0 1 5 0 2 I 0 17083 3 0 2 S 1 2 M 17 51 5 0 2 I 0 45452 3 0 2 M 2 6 S 0 1 5 0 2 I 0 24443 3 0 2 S 1 2 M 14 42 S 0 1 5 0 2 I 0 3389 3 0 2 S 1 2 M 12 36 S 0 1 5 0 2 I 0 4897 3 0 2 S 1 2 M 13 39 S 0 1 5 0 2 I 0 2201 3 0 2 S 1 2 M 8 24 5 0 2 I 0 2132 3 0 2 M 4 12 5 0 2 I 0 12579 3 0 2 M 39 117 S 0 2 5 0 2 I 0 2893 3 0 2 S 1 1 M 21 63 S 0 2 5 0 2 I 0 61772 3 0 2 S 1 1 M 35 105 S 0 1 5 0 2 I 0 17862 3 0 2 S 1 2 M 23 69 S 0 1 5 0 2 I 0 3652 3 0 2 S 1 2 M 7 21 S 0 2 5 0 2 I 0 2293 3 0 2 S 1 1 M 2 6 S 0 1 5 0 2 I 0 500 3 0 2 S 1 2 M 30 90
# --- START OF GFF DUMP ---
#
#
##gff-version 2
##source-version exonerate:protein2genome:local 2.2.0
##date 2013-11-25
##type DNA
#
#
# seqname source feature start end score strand frame attributes
#
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local gene 1139 244186 101 + . gene_id 2 ; sequence SPP00000144_2.0 ; gene_orientation +
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local cds 1139 1161 . + .
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local exon 1139 1161 . + . insertions 0 ; deletions 0
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice5 1162 1163 . + . intron_id 1 ; splice_site "GT"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local intron 1162 12135 . + . intron_id 1
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice3 12134 12135 . + . intron_id 0 ; splice_site "AG"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local cds 12136 12199 . + .
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local exon 12136 12199 . + . insertions 0 ; deletions 0
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice5 12200 12201 . + . intron_id 2 ; splice_site "GT"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local intron 12200 23310 . + . intron_id 2
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice3 23309 23310 . + . intron_id 1 ; splice_site "AG"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local cds 23311 23341 . + .
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local exon 23311 23341 . + . insertions 0 ; deletions 0
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice5 23342 23343 . + . intron_id 3 ; splice_site "GT"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local intron 23342 27328 . + . intron_id 3
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice3 27327 27328 . + . intron_id 2 ; splice_site "AG"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local cds 27329 27400 . + .
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local exon 27329 27400 . + . insertions 0 ; deletions 0
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice5 27401 27402 . + . intron_id 4 ; splice_site "GC"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local intron 27401 42245 . + . intron_id 4
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice3 42244 42245 . + . intron_id 3 ; splice_site "AG"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local cds 42246 42269 . + .
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local exon 42246 42269 . + . insertions 0 ; deletions 0
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice5 42270 42271 . + . intron_id 5 ; splice_site "GT"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local intron 42270 59356 . + . intron_id 5
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice3 59355 59356 . + . intron_id 4 ; splice_site "AG"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local cds 59357 59409 . + .
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local exon 59357 59409 . + . insertions 0 ; deletions 0
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice5 59410 59411 . + . intron_id 6 ; splice_site "GT"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local intron 59410 104865 . + . intron_id 6
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice3 104864 104865 . + . intron_id 5 ; splice_site "AG"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local cds 104866 104872 . + .
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local exon 104866 104872 . + . insertions 0 ; deletions 0
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice5 104873 104874 . + . intron_id 7 ; splice_site "GT"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local intron 104873 129319 . + . intron_id 7
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice3 129318 129319 . + . intron_id 6 ; splice_site "AG"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local cds 129320 129364 . + .
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local exon 129320 129364 . + . insertions 0 ; deletions 0
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice5 129365 129366 . + . intron_id 8 ; splice_site "GT"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local intron 129365 132757 . + . intron_id 8
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice3 132756 132757 . + . intron_id 7 ; splice_site "AC"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local cds 132758 132796 . + .
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local exon 132758 132796 . + . insertions 0 ; deletions 0
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice5 132797 132798 . + . intron_id 9 ; splice_site "TT"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local intron 132797 137697 . + . intron_id 9
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice3 137696 137697 . + . intron_id 8 ; splice_site "AT"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local cds 137698 137739 . + .
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local exon 137698 137739 . + . insertions 0 ; deletions 0
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice5 137740 137741 . + . intron_id 10 ; splice_site "GT"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local intron 137740 139944 . + . intron_id 10
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice3 139943 139944 . + . intron_id 9 ; splice_site "AG"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local cds 139945 139970 . + .
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local exon 139945 139970 . + . insertions 0 ; deletions 0
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice5 139971 139972 . + . intron_id 11 ; splice_site "GT"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local intron 139971 142106 . + . intron_id 11
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice3 142105 142106 . + . intron_id 10 ; splice_site "AG"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local cds 142107 142118 . + .
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local exon 142107 142118 . + . insertions 0 ; deletions 0
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice5 142119 142120 . + . intron_id 12 ; splice_site "GT"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local intron 142119 154701 . + . intron_id 12
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice3 154700 154701 . + . intron_id 11 ; splice_site "AC"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local cds 154702 154820 . + .
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local exon 154702 154820 . + . insertions 0 ; deletions 0
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice5 154821 154822 . + . intron_id 13 ; splice_site "GA"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local intron 154821 157717 . + . intron_id 13
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice3 157716 157717 . + . intron_id 12 ; splice_site "AT"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local cds 157718 157783 . + .
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local exon 157718 157783 . + . insertions 0 ; deletions 0
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice5 157784 157785 . + . intron_id 14 ; splice_site "GT"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local intron 157784 219559 . + . intron_id 14
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice3 219558 219559 . + . intron_id 13 ; splice_site "AG"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local cds 219560 219666 . + .
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local exon 219560 219666 . + . insertions 0 ; deletions 0
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice5 219667 219668 . + . intron_id 15 ; splice_site "GT"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local intron 219667 237532 . + . intron_id 15
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice3 237531 237532 . + . intron_id 14 ; splice_site "AG"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local cds 237533 237604 . + .
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local exon 237533 237604 . + . insertions 0 ; deletions 0
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice5 237605 237606 . + . intron_id 16 ; splice_site "GT"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local intron 237605 241260 . + . intron_id 16
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice3 241259 241260 . + . intron_id 15 ; splice_site "AG"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local cds 241261 241285 . + .
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local exon 241261 241285 . + . insertions 0 ; deletions 0
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice5 241286 241287 . + . intron_id 17 ; splice_site "GT"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local intron 241286 243582 . + . intron_id 17
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice3 243581 243582 . + . intron_id 16 ; splice_site "AG"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local cds 243583 243590 . + .
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local exon 243583 243590 . + . insertions 0 ; deletions 0
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice5 243591 243592 . + . intron_id 18 ; splice_site "GT"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local intron 243591 244094 . + . intron_id 18
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice3 244093 244094 . + . intron_id 17 ; splice_site "AG"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local cds 244095 244186 . + .
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local exon 244095 244186 . + . insertions 0 ; deletions 0
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local similarity 1139 244186 101 + . alignment_id 2 ; Query SPP00000144_2.0 ; Align 1139 66 21 ; Align 12137 74 63 ; Align 23311 95 30 ; Align 27331 106 69 ; Align 42248 130 21 ; Align 59359 138 51 ; Align 104866 155 6 ; Align 129322 158 42 ; Align 132760 173 36 ; Align 137700 186 39 ; Align 139947 200 24 ; Align 142107 208 12 ; Align 154702 212 117 ; Align 157719 252 63 ; Align 219561 274 105 ; Align 237535 310 69 ; Align 241263 334 21 ; Align 243584 342 6 ; Align 244097 345 90
# --- END OF GFF DUMP ---
#
C4 Alignment:
------------
Query: SPP00000144_2.0 # Protein # Eukaryotic elongation factor (eEFSec) # Human (Homo sapiens)
Target: gi|397462090|gb|JH733411.1|:subseq(110221,245320) Alligator mississippiensis unplaced genomic scaffold scaffold-3859, whole genome shotgun sequence:[revcomp]
Model: protein2genome:local
Raw score: 2096
Query range: 12 -> 595
Target range: 245320 -> 49999
13 : LeuGlyHisIleAspSerGlyLysThrAlaLeuAlaArgAlaLeuSerThrThrAlaS : 32
|||||||||||||||||||||||||||||||||||||||||||||||||||.!!!.!|
LeuGlyHisIleAspSerGlyLysThrAlaLeuAlaArgAlaLeuSerThrAlaGlyS
245320 : CTGGGCCACATCGACAGCGGCAAGACGGCGCTGGCCCGAGCGCTCAGCACCGCCGGCT : 245263
33 : erThrAlaAlaPheAspLysGlnProGlnSerArgGluArgGlyIleThrLeuAspLe : 51
|||||||||||||||||::: !||||||||||||! ||||||||||||||||||||
erThrAlaAlaPheAspArgAlaProGlnSerArgAlaArgGlyIleThrLeuAspLe
245262 : CTACCGCCGCCTTCGACCGCGCGCCGCAGAGCCGCGCCCGCGGCATCACCCTGGACCT : 245206
52 : uGlyPheSerCysPheSerValProLeuProAlaArgLeuArgSerSerLeuProGlu : 70
|||||||||||||.!!!!!..! !!|||||| !!||||||
uGlyPheSerCysLeuCysThrAlaLeuProProArgLeu------------------
245205 : GGGCTTCTCGTGCCTCTGCACCGCGCTGCCCCCGCGCCTC------------------ : 245164
71 : PheGlnAlaAlaProGluAlaGluProGluProGlyGluProLeuLeuGlnValThrL : 90
!.!|||! !!! |||! ||||||.!. !! !|||||| !!||||
---------GlyProGlyProGlyProGlyProGlyHisGlyHisLeuGlnPheThrL
245163 : ---------GGCCCCGGCCCCGGCCCCGGCCCCGGCCACGGGCACCTGCAGTTCACGC : 245116
91 : euValAspCysProGlyHisAlaSerLeuIleArgThrIleIleGly{G} >>>> T : 106
|||||||||||||||||||||||||||||||||||||||||||||||{|}
euValAspCysProGlyHisAlaSerLeuIleArgThrIleIleGly{G}++
245115 : TGGTGGACTGCCCCGGCCACGCCTCCCTCATCCGGACCATCATCGGC{G}gt...... : 245065
107 : arget Intron 1 >>>> {ly}AlaGlnIleIleAspLeuMetMetLeuValIle : 117
53824 bp {||}|||||||||||||||||||||||||||||||||
++{ly}AlaGlnIleIleAspLeuMetMetLeuValIle
245064 : ...................ag{GT}GCCCAGATTATTGATTTGATGATGCTTGTAATA : 191211
118 : AspValThrLysGlyMetGlnThrGlnSerAlaGluCysLeuValIleGlyGlnIleA : 137
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
AspValThrLysGlyMetGlnThrGlnSerAlaGluCysLeuValIleGlyGlnIleA
191210 : GATGTGACAAAAGGGATGCAGACTCAGTCAGCAGAGTGCTTAGTGATTGGACAAATTG : 191151
138 : laCysGlnLysLeuValValValLeuAsnLysIleAspLeuLeuProGluGlyLysAr : 156
|||||||||||:!!||||||||||||||||||||||||||||||||||||||||||||
laCysGlnLysMetValValValLeuAsnLysIleAspLeuLeuProGluGlyLysAr
191150 : CTTGCCAGAAGATGGTAGTAGTTCTGAACAAAATAGATCTCCTTCCAGAGGGGAAGAG : 191094
157 : gGlnAlaAlaIleAspLysMetThrLysLysMetGlnLysThrLeuGluAsnThr{Ly : 175
|||||||||||||!!:|||||||||||||||||||||||||||||||||||||||{||
gGlnAlaAlaIleGluLysMetThrLysLysMetGlnLysThrLeuGluAsnThr{Ly
191093 : ACAGGCTGCCATTGAGAAGATGACCAAGAAAATGCAAAAGACCTTGGAAAATACA{AA : 191037
176 : } >>>> Target Intron 2 >>>> {s}PheArgGlyAlaProIleIleProV : 184
} 7355 bp {|}|||!.!|||..!||||||:!! !!|
}++ ++{s}PheHisGlyCysProIleValAlaV
191036 : }gt.........................ag{G}TTCCATGGGTGTCCTATTGTTGCGG : 183655
185 : alAlaAlaLysProGlyGlyProGluAlaProGluThrGluAlaProGlnGlyIlePr : 203
||||||||||||||||||||||||||||||||||||||! ! !|||! !|||:!! !
alAlaAlaLysProGlyGlyProGluAlaProGluThrValAsnProLeuGlyValSe
183654 : TGGCAGCTAAACCTGGTGGACCAGAAGCCCCAGAGACTGTGAATCCACTAGGTGTTTC : 183598
204 : oGluLeuIleGlu >>>> Target Intron 3 >>>> LeuLeuThrSerGlnI : 213
!|||||||||||| 3362 bp :!!|||! !||||||
rGluLeuIleGlu++ ++ValLeuLysSerGlnA
183597 : TGAATTAATTGAGgt.........................agGTCCTGAAGTCTCAGG : 180206
214 : leSerIleProThrArgAspProSerGlyProPheLeuMetSerValAspHisCysPh : 232
!! !:!:|||:!!|||||||||||||||||||||||||||:!!||||||||||||||
laTyrLeuProSerArgAspProSerGlyProPheLeuMetAlaValAspHisCysPh
180205 : CTTACCTGCCATCAAGAGATCCCTCTGGACCCTTCCTTATGGCAGTTGATCACTGTTT : 180149
233 : eSerIleLysGlyGlnGlyThrValMetThrGlyThrIleLeuSerGlySerIleSer : 251
|||||||||||||||||||||||||||||||||||||||||||!!!||||||:!!|||
eSerIleLysGlyGlnGlyThrValMetThrGlyThrIleLeuThrGlySerValSer
180148 : CTCTATCAAGGGTCAAGGCACAGTGATGACAGGGACTATTCTTACTGGCTCTGTTAGC : 180092
252 : LeuGlyAspSerValGluIleProAlaLeuLys >>>> Target Intron 4 >> : 263
|||||||||!:!||||||||||||||||||||| 43037 bp
LeuGlyAspAsnValGluIleProAlaLeuLys++
180091 : CTAGGTGATAATGTGGAGATTCCCGCCCTGAAGgt....................... : 180054
264 : >> ValValLysLysValLysSerMetGlnMetPheHisMetProIleThrSerAla : 280
||| !||||||||||||||||||||||||||||||! |||:!:|||! !|||
++ValSerLysLysValLysSerMetGlnMetPheHisThrProValThrTyrAla
180053 : ..agGTGTCAAAGAAAGTCAAGTCCATGCAGATGTTCCATACTCCCGTGACTTACGCC : 136968
281 : MetGlnGlyAspArgLeuGlyIleCysValThrGlnPheAspProLysLeuLeuGluA : 300
|||||||||||||||:!!||||||||||||||||||||||||||||||||||||||||
MetGlnGlyAspArgValGlyIleCysValThrGlnPheAspProLysLeuLeuGluA
136967 : ATGCAGGGGGACAGGGTAGGCATCTGTGTGACCCAGTTTGATCCCAAGCTGCTAGAAC : 136908
301 : rgGlyLeuValCysAlaProGluSerLeuHisThrValHisAlaAlaLeuIleSerVa : 319
||||||||:!!|||.!!||||||||||||!!.|||:!!|||||||||:!!||||||:!
rgGlyLeuIleCysThrProGluSerLeuGlnThrIleHisAlaAlaIleIleSerLe
136907 : GGGGTCTCATCTGTACCCCAGAATCTCTCCAGACCATACATGCTGCCATTATCTCCCT : 136851
320 : lGluLysIleProTyrPheArgGlyProLeuGlnThrLysAlaLysPheHisIleThr : 338
!:!!||||||! !|||||||||||| !!||||||||||||||||||||||||||||||
uLysLysIleGlnTyrPheArgGlyAlaLeuGlnThrLysAlaLysPheHisIleThr
136850 : GAAGAAAATTCAGTATTTTCGAGGTGCGCTGCAGACCAAAGCCAAGTTTCATATCACA : 136794
339 : ValGlyHisGluThrValMetGlyArgLeuMetPhePheSerProAlaProAspAsnP : 358
|||||||||||||||||||||||||||:!!|||||||||.!!|||||||||! !:!!|
ValGlyHisGluThrValMetGlyArgValMetPhePheGlyProAlaProAlaAspP
136793 : GTTGGTCACGAAACAGTTATGGGACGAGTAATGTTCTTCGGTCCAGCCCCTGCTGACT : 136734
359 : heAspGlnGluProIleLeuAspSerPheAsnPheSerGlnGluTyrLeuPheGlnGl : 377
||:!!:!!||||||:!: !:!!:!!|||:!!|||..!::!!!:||||||!:!|||||
heAsnLysGluProLeuAspAsnAlaPheAspPheGluArgAspTyrLeuTyrGlnGl
136733 : TCAACAAAGAGCCCCTGGACAATGCCTTTGATTTTGAAAGAGATTACCTTTATCAAGA : 136677
378 : uGlnTyrLeuSerLysAspLeuThrProAlaValThrAspAsnAspGluAlaAspLys : 396
|:!!||||||||||||||| :!! !||| ! !!!:||| ! !!: !|||:!!
uGluTyrLeuSerLysAsp---SerLysAlaSerAspGluAsnLysAspAsnAspGln
136676 : AGAATATTTGTCCAAGGAT---TCGAAGGCTTCTGATGAAAACAAGGATAATGACCAG : 136623
397 : LysAlaGlyGlnAlaThrGluGlyHisCysProArgGlnGlnTrpAlaLeuValGluP : 416
! !!.!! !||| !|||!:!|||||||||||||||:!!||||
ThrGlyGluGln---------------LeuProLysGlnGlnTrpAlaLeuLeuGluP
136622 : ACAGGAGAGCAG---------------CTCCCGAAGCAACAGTGGGCCTTACTGGAGT : 136578
417 : heGluLysProValThrCysProArgLeuCysLeuValIleGlySerArgLeuAspAl : 435
|||||||||||||||||||||||||||||||||||||||||||||||!:!||||||.!
heGluLysProValThrCysProArgLeuCysLeuValIleGlySerLysLeuAspTh
136577 : TTGAAAAACCAGTCACTTGTCCTCGACTCTGTCTTGTAATTGGGTCAAAACTGGATAC : 136521
436 : aAspIleHisThrAsnThrCysArgLeuAlaPheHisGlyIleLeuLeuHisGlyLeu : 454
!|||||||||.!!|||||||||||||||||||||||||||:!!||||||!!.||||||
rAspIleHisAlaAsnThrCysArgLeuAlaPheHisGlyValLeuLeuGlnGlyLeu
136520 : TGATATTCATGCAAACACCTGCAGGTTGGCATTCCATGGGGTATTGCTTCAAGGCCTA : 136464
455 : GluAspArgAsnTyrAlaAspSerPheLeuProArgLeuLysValTyrLysLeuLysH : 474
||||||!:!||||||.!!!!:!!!|||||||||!:!||||||||||||||||||||||
GluAspLysAsnTyrThrGluThrPheLeuProLysLeuLysValTyrLysLeuLysH
136463 : GAAGATAAAAACTATACAGAGACTTTCCTTCCAAAGCTGAAAGTGTACAAACTGAAGC : 136404
475 : isLysHisGlyLeuValGluArg >>>> Target Intron 5 >>>> AlaMet : 483
|||||.!.|||! !||||||||| 20117 bp !.!!!:
isLysGluGlyGlnValGluArg++ ++ValIle
136403 : ACAAAGAAGGTCAAGTGGAAAGGgt.........................agGTGATA : 116260
484 : AspAspTyrSerValIleGlyArgSerLeuPheLysLysGluThrAsnIleGlnLeuP : 503
||||||||||||||||||||||||||||||||||||||||||||||||||||||:!!|
AspAspTyrSerValIleGlyArgSerLeuPheLysLysGluThrAsnIleGlnIleP
116259 : GACGATTACAGCGTGATCGGTCGTTCGCTGTTTAAAAAGGAAACCAACATCCAGATTT : 116200
504 : heValGlyLeuLysValHisLeuSerThrGlyGluLeuGlyIleIleAspSerAlaPh : 522
||||||||||||||||| ! ||||||||||||||| !|||||||||!!:.!!!.!||
heValGlyLeuLysValLysLeuSerThrGlyGluAspGlyIleIleGluGlyGlyPh
116199 : TTGTGGGGCTGAAAGTCAAGCTATCTACAGGAGAGGATGGCATAATAGAAGGTGGCTT : 116143
523 : eGlyGlnSerGlyLysPheLysIleHisIlePro{G} >>>> Target Intron : 534
|||||||||||||||||||||||||!..||||||{!} 65925 bp
eGlyGlnSerGlyLysPheLysIleArgIlePro{A}++
116142 : TGGGCAGAGTGGTAAATTTAAAATCCGAATCCCA{G}gt................... : 116104
535 : 6 >>>> {ly}GlyLeuSerProGluSerLysLysIleLeuThrProAlaLeuLysL : 550
{ !}||||||!.!|||!!:!!!||| !:!!|||||| !|||! !||||
++{sp}GlyLeuLysProAspThrLysAlaLeuLeuThrValAlaSerLysL
116103 : ......ag{AT}GGGCTCAAGCCAGACACAAAGGCACTTCTGACTGTTGCCTCTAAGA : 50134
551 : ysArgAlaArgAlaGlyArgGlyGluAlaThrArgGlnGluGluSerAlaGluArgSe : 569
||!:!:!!|||||||||!:!|||!!:|||.!!!:!:!!!!:!!:|||.!! !:!:!
ysLysSerArgAlaGlyLysGlyAspAlaAlaLysGluAspAspSerThr---LysAl
50133 : AGAAATCCAGAGCAGGGAAAGGGGATGCAGCCAAAGAGGATGACAGCACC---AAAGC : 50080
570 : rGluProSerGlnHisValValLeuSerLeuThrPheLysArgTyrValPheAspThr : 588
!||| !!:!!|||! !|||!.!:!!|||||| !||||||||||||||||||||||||
aGluSerAlaGlnProValAlaIleSerLeuLeuPheLysArgTyrValPheAspThr
50079 : TGAGTCAGCCCAGCCTGTTGCCATCAGCCTTCTCTTTAAAAGATACGTCTTTGACACG : 50023
589 : HisLysArgMetValGlnSer : 595
!!.|||!:!|||:!!||||||
GlnLysLysMetIleGlnSer
50022 : CAGAAGAAAATGATTCAGTCT : 50000
vulgar: SPP00000144_2.0 12 595 . gi|397462090|gb|JH733411.1|:subseq(110221,245320) 245320 49999 - 2096 M 52 156 G 9 0 M 32 96 S 0 1 5 0 2 I 0 53820 3 0 2 S 1 2 M 68 204 S 0 2 5 0 2 I 0 7351 3 0 2 S 1 1 M 32 96 5 0 2 I 0 3358 3 0 2 M 55 165 5 0 2 I 0 43033 3 0 2 M 121 363 G 1 0 M 16 48 G 5 0 M 76 228 5 0 2 I 0 20113 3 0 2 M 52 156 S 0 1 5 0 2 I 0 65921 3 0 2 S 1 2 M 32 96 G 1 0 M 28 84
# --- START OF GFF DUMP ---
#
#
##gff-version 2
##source-version exonerate:protein2genome:local 2.2.0
##date 2013-11-25
##type DNA
#
#
# seqname source feature start end score strand frame attributes
#
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local gene 50000 245320 2096 - . gene_id 1 ; sequence SPP00000144_2.0 ; gene_orientation +
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local cds 245068 245320 . - .
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local exon 245068 245320 . - . insertions 0 ; deletions 9
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice5 245066 245067 . - . intron_id 1 ; splice_site "GT"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local intron 191244 245067 . - . intron_id 1
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice3 191244 191245 . - . intron_id 0 ; splice_site "AG"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local cds 191036 191243 . - .
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local exon 191036 191243 . - . insertions 0 ; deletions 0
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice5 191034 191035 . - . intron_id 2 ; splice_site "GT"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local intron 183681 191035 . - . intron_id 2
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice3 183681 183682 . - . intron_id 1 ; splice_site "AG"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local cds 183584 183680 . - .
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local exon 183584 183680 . - . insertions 0 ; deletions 0
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice5 183582 183583 . - . intron_id 3 ; splice_site "GT"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local intron 180222 183583 . - . intron_id 3
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice3 180222 180223 . - . intron_id 2 ; splice_site "AG"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local cds 180057 180221 . - .
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local exon 180057 180221 . - . insertions 0 ; deletions 0
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice5 180055 180056 . - . intron_id 4 ; splice_site "GT"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local intron 137020 180056 . - . intron_id 4
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice3 137020 137021 . - . intron_id 3 ; splice_site "AG"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local cds 136381 137019 . - .
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local exon 136381 137019 . - . insertions 0 ; deletions 6
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice5 136379 136380 . - . intron_id 5 ; splice_site "GT"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local intron 116264 136380 . - . intron_id 5
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice3 116264 116265 . - . intron_id 4 ; splice_site "AG"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local cds 116107 116263 . - .
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local exon 116107 116263 . - . insertions 0 ; deletions 0
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice5 116105 116106 . - . intron_id 6 ; splice_site "GT"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local intron 50182 116106 . - . intron_id 6
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local splice3 50182 50183 . - . intron_id 5 ; splice_site "AG"
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local cds 50000 50181 . - .
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local exon 50000 50181 . - . insertions 0 ; deletions 1
gi|397462090|gb|JH733411.1|:subseq(110221,245320) exonerate:protein2genome:local similarity 50000 245320 2096 - . alignment_id 1 ; Query SPP00000144_2.0 ; Align 245321 13 156 ; Align 245165 74 96 ; Align 191242 107 204 ; Align 183680 176 96 ; Align 180222 208 165 ; Align 137020 263 363 ; Align 136657 385 48 ; Align 136609 406 228 ; Align 116264 482 156 ; Align 50180 535 96 ; Align 50084 568 84
# --- END OF GFF DUMP ---
#
-- completed exonerate analysis