C4 Alignment:
------------
Query: SPP00000064_2.0 # Protein # Selenophosphate synthetase 2 (SPS2) # Human (Homo sapiens)
Target: gi|397458164|gb|JH737337.1|:subseq(347813,73300) Alligator mississippiensis unplaced genomic scaffold scaffold-10337, whole genome shotgun sequence
Model: protein2genome:local
Raw score: 1587
Query range: 1 -> 444
Target range: 14401 -> 53565
2 : AlaGluAlaSerAlaThrGlyAlaCysGlyGluAlaMetAlaAla{A} >>>> Targe : 17
::!..!|||:!!!.!.!!||||||...|||..!||| !||||||{!} 5
SerArgAlaAlaGlyAlaGlyAlaAlaGlyArgAlaGluAlaAla{V}+-
14402 : AGCCGAGCGGCGGGGGCGGGGGCCGCGGGCAGGGCCGAGGCAGCA{G}gg.......... : 14450
18 : t Intron 1 >>>> {la}GluGlySerSerGlyProAlaGlyLeuThrLeuGlyArg : 30
945 bp {.!}||||||!.!||||||! ! !..!|||!:!! ! !! !
++{al}GluGlyLysSerGlyHisLeuAsnLeuSerProHisLeu
14451 : ...............ag{TA}GAAGGCAAGTCAGGGCACCTTAACCTCAGCCCCCACCTT : 20431
31 : Ser >>>> Target Intron 2 >>>> PheSerAsnTyrArgProPheGluProG : 41
..! 29554 bp ! !!..!||||||||||||||||||:
Gln++ -+ProProGlyTyrArgProPheGluProG
20432 : CAGgt.........................cgCCTCCGGGCTACCGGCCCTTCGAGCCTG : 50018
42 : lnAlaLeuGlyLeuSerProSerTrpArgLeuThrGlyPheSerGlyMetLysGlyUnkG : 61
!!||||||||||||||||||.!!||||||||||||||||||.!!! !:!!:::||| |
luAlaLeuGlyLeuSerProGlyTrpArgLeuThrGlyPheGlyGluLeuArgGly***G
50019 : AGGCTCTAGGGCTGAGCCCGGGATGGCGCCTCACCGGCTTCGGGGAGCTGCGCGGCTGAG : 50078
62 : lyCysLysValProGlnGluAlaLeuLeuLysLeuLeuAlaGlyLeuThrArgProAspV : 81
||||||||||||||||||||.!!||||||!:!||||||||||||||| ! !! !! !!
lyCysLysValProGlnGluThrLeuLeuArgLeuLeuAlaGlyLeuGlyGlyAlaArgA
50079 : GCTGCAAAGTCCCGCAGGAGACGCTGCTCAGGCTCCTGGCGGGACTCGGCGGAGCCCGCG : 50138
82 : alArgProProLeuGlyArgGlyLeuValGlyGlyGlnGluGluAlaSer{G} >>>> : 98
.! ! ! ! ! ! !..! ! !|||..!... ||| !{ }
laAlaGlyGluGlyProValSerGluProGlySerSerProProAlaLeu{G}++
50139 : CGGCCGGGGAGGGTCCCGTGTCCGAGCCCGGCTCCTCCCCCCCCGCCCTC{G}gt..... : 50192
99 : Target Intron 3 >>>> {ln}GluAlaGlyLeuProAlaGlyAlaGlyProSerP : 110
87 bp { }! !! !||| !|||!.!:!!||| !.!!
-+{ly}GlyGlnAspLeuValAlaAlaSerGlyGlyGlyC
50193 : ....................tg{GC}GGCCAGGACTTGGTAGCAGCCTCCGGTGGCGGCT : 50312
111 : roThrPheProAlaLeuGlyIleGlyMetAspSerCysValIleProLeuArgHisGlyG : 130
! !!!. !! !!:!!|||||||||||||||||||||||||||||||||||||||||||
ysPheLeuSerProValGlyIleGlyMetAspSerCysValIleProLeuArgHisGlyG
50313 : GTTTCTTGTCCCCTGTAGGAATCGGGATGGACTCGTGCGTCATTCCCCTGCGGCACGGGG : 50372
131 : lyLeuSerLeuValGlnThrThrAspPhePheTyrProLeuValGluAspProTyrMetM : 150
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
lyLeuSerLeuValGlnThrThrAspPhePheTyrProLeuValGluAspProTyrMetM
50373 : GCCTCTCTCTGGTGCAGACCACGGATTTCTTCTACCCTCTCGTGGAGGATCCTTACATGA : 50432
151 : et >>>> Target Intron 4 >>>> GlyArgIleAlaCysAlaAsnValLeuSe : 160
|| 202 bp |||||||||||||||||||||||||||||
et++ ++GlyArgIleAlaCysAlaAsnValLeuSe
50433 : TGgt.........................agGGTCGCATCGCTTGTGCCAACGTGTTGAG : 50664
161 : rAspLeuTyrAlaMetGlyIleThrGluCysAspAsnMetLeuMetLeuLeuSerValSe : 180
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
rAspLeuTyrAlaMetGlyIleThrGluCysAspAsnMetLeuMetLeuLeuSerValSe
50665 : CGATCTCTACGCCATGGGCATCACAGAGTGCGACAACATGCTGATGCTGCTCAGTGTCAG : 50724
181 : rGlnSerMetSerGluGlu >>>> Target Intron 5 >>>> GluArgGluLys : 190
||||!.!|||!!!!!:||| 1029 bp ||||||||||||
rGlnLysMetThrAspGlu++ ++GluArgGluLys
50725 : CCAGAAGATGACTGATGAGgt.........................agGAACGTGAGAAG : 51783
191 : ValThrProLeuMetValLysGlyPheArgAspAlaAlaGluGluGlyGlyThrAlaVal : 210
:!!! !||||||!!::!!||||||||||||||||||||||||!!:|||||||||:!!|||
IleMetProLeuIleIleLysGlyPheArgAspAlaAlaGluAspGlyGlyThrSerVal
51784 : ATCATGCCACTGATCATCAAAGGTTTCCGGGATGCTGCTGAGGATGGCGGCACATCGGTG : 51843
211 : ThrGlyGlyGlnThrValValAsnProTrpIleIleIleGlyGlyValAlaThrValVal : 230
||||||||||||||||||:!!|||||||||||||||:!!|||||||||||||||||||||
ThrGlyGlyGlnThrValMetAsnProTrpIleIleValGlyGlyValAlaThrValVal
51844 : ACAGGTGGTCAGACTGTGATGAACCCCTGGATCATTGTTGGGGGTGTTGCCACTGTGGTC : 51903
231 : CysGlnProAsnGluPheIle{Me} >>>> Target Intron 6 >>>> {t}Pro : 239
|||||||||||||||||||||{||} 197 bp {|}|||
CysGlnProAsnGluPheIle{Me}++ ++{t}Pro
51904 : TGCCAGCCCAATGAGTTCATC{AT}gt.........................ag{G}CCA : 52127
240 : AspSerAlaValValGlyAspValLeuValLeuThrLysProLeuGlyThrGlnValAla : 259
|||!:!|||||| !|||||||||||||||||||||||||||||||||||||||||||||
AspAsnAlaValProGlyAspValLeuValLeuThrLysProLeuGlyThrGlnValAla
52128 : GACAATGCAGTTCCTGGCGATGTGCTGGTTCTCACGAAGCCCCTGGGCACACAGGTGGCT : 52187
260 : ValAsnAlaHisGlnTrpLeuAspAsn >>>> Target Intron 7 >>>> ProG : 270
|||!.!||||||||||||||||||||| 80 bp ||||
ValThrAlaHisGlnTrpLeuAspAsn++ ++ProG
52188 : GTCACCGCTCACCAGTGGCTGGATAATgt.........................agCCTG : 52300
271 : luArgTrpAsnLysValLysMetValValSerArgGluGluValGluLeuAlaTyrGlnG : 290
||||||||||||||:!!|||:!!|||||||||!:!|||!!:|||||||||||||||||||
luArgTrpAsnLysIleLysLeuValValSerLysGluAspValGluLeuAlaTyrGlnG
52301 : AGCGGTGGAACAAGATCAAGCTGGTGGTCTCCAAGGAGGATGTGGAGCTAGCCTACCAGG : 52360
291 : luAlaMetPheAsnMetAlaThrLeuAsnArgThr{A} >>>> Target Intron 8 : 302
|||||||||||!:!||||||! !||||||||||||{|} 279 bp
luAlaMetPheSerMetAlaMetLeuAsnArgThr{A}++
52361 : AAGCCATGTTCAGCATGGCCATGCTGAACCGAACA{G}gt.................... : 52399
303 : >>>> {la}AlaGlyLeuMetHisThrPheAsnAlaHisAlaAlaThrAspIleThrG : 319
{||}|||.!!|||||||||||||||||||||||||||||||||||||||||||
++{la}AlaSerLeuMetHisThrPheAsnAlaHisAlaAlaThrAspIleThrG
52400 : .....ag{CG}GCCAGCCTGATGCACACTTTCAACGCTCACGCAGCCACGGACATCACGG : 52726
320 : lyPheGlyIleLeuGlyHisSerGlnAsnLeuAlaLysGlnGlnArgAsnGluValSerP : 339
||||||||||||||||||||:!!||||||||||||!:!|||||||||:!!||||||||||
lyPheGlyIleLeuGlyHisAlaGlnAsnLeuAlaArgGlnGlnArgHisGluValSerP
52727 : GCTTCGGGATCCTGGGCCATGCGCAGAACCTAGCCAGGCAGCAGCGCCATGAAGTTTCTT : 52786
340 : heValIleHisAsnLeuProIleIleAlaLysMetAlaAlaValSerLysAlaSerGly< : 359
|||||||||||||||||||||||||||||||||||||||||||||||||||||!!!|||
heValIleHisAsnLeuProIleIleAlaLysMetAlaAlaValSerLysAlaCysGlyA
52787 : TTGTCATCCACAATCTGCCCATCATTGCCAAGATGGCTGCAGTCAGCAAGGCCTGCGGGA : 52846
360 : ->ArgPheGlyLeuLeuGlnGlyThrSerAlaGluThrSer{G} >>>> Target In : 372
|||! !||||||||||||||||||||| !!|||||||||{|} 459
snArgSerGlyLeuLeuGlnGlyThrSerProGluThrSer{G}++
52847 : ACCGCTCCGGGCTGCTTCAGGGCACGTCTCCGGAGACCTCA{G}gt.............. : 52891
373 : tron 9 >>>> {ly}GlyLeuLeuIleCysLeuProArgGluGlnAlaAlaArgPheC : 387
bp {||}|||||||||||||||||||||||||||||||||||||||||||
++{ly}GlyLeuLeuIleCysLeuProArgGluGlnAlaAlaArgPheC
52892 : ...........ag{GG}GGGCTTCTGATCTGCCTACCCCGGGAGCAGGCCGCACGCTTCT : 53392
388 : ysSerGluIleLysSerSerLysTyrGlyGluGlyHisGlnAlaTrpIleValGlyIleV : 407
||:!!|||||||||||| !!|||:!!||||||||||||||||||||||||:!!|||||||
ysAlaGluIleLysSerProLysHisGlyGluGlyHisGlnAlaTrpIleIleGlyIleV
53393 : GTGCTGAGATCAAGTCCCCCAAGCATGGTGAGGGCCACCAGGCCTGGATCATCGGCATCG : 53452
408 : alGluLysGlyAsnArgThrAlaArgIleIleAspLysProArgValIleGluValLeuP : 427
||||||||||||||!:!|||||||||||||||||||||||||||:!!|||||||||:!!|
alGluLysGlyAsnGlnThrAlaArgIleIleAspLysProArgIleIleGluValMetP
53453 : TGGAAAAGGGCAACCAGACTGCACGCATCATTGACAAGCCCCGCATCATCGAGGTGATGC : 53512
428 : roArgGlyAlaThrAlaAlaValLeuAlaProAspSerSerAsnAlaSerSer : 444
|||||||||||.!!|||.!!!.!! ! !! !!|||!:!!!! !!.!:!!|||
roArgGlyAlaAlaAlaThrAlaSerProThrAspAsnThrAlaGlyAlaSer
53513 : CTCGGGGGGCTGCAGCCACTGCCTCACCCACCGACAACACAGCTGGGGCCAGC : 53565
vulgar: SPP00000064_2.0 1 444 . gi|397458164|gb|JH737337.1|:subseq(347813,73300) 14401 53565 + 1587 M 15 45 S 0 1 5 0 2 I 0 5941 3 0 2 S 1 2 M 14 42 5 0 2 I 0 29550 3 0 2 M 66 198 S 0 1 5 0 2 I 0 83 3 0 2 S 1 2 M 52 156 5 0 2 I 0 198 3 0 2 M 36 108 5 0 2 I 0 1025 3 0 2 M 51 153 S 0 2 5 0 2 I 0 193 3 0 2 S 1 1 M 30 90 5 0 2 I 0 76 3 0 2 M 33 99 S 0 1 5 0 2 I 0 275 3 0 2 S 1 2 M 56 168 G 0 3 M 13 39 S 0 1 5 0 2 I 0 455 3 0 2 S 1 2 M 72 216
# --- START OF GFF DUMP ---
#
#
##gff-version 2
##source-version exonerate:protein2genome:local 2.2.0
##date 2013-11-15
##type DNA
#
#
# seqname source feature start end score strand frame attributes
#
gi|397458164|gb|JH737337.1|:subseq(347813,73300) exonerate:protein2genome:local gene 14402 53565 1587 + . gene_id 1 ; sequence SPP00000064_2.0 ; gene_orientation +
gi|397458164|gb|JH737337.1|:subseq(347813,73300) exonerate:protein2genome:local cds 14402 14447 . + .
gi|397458164|gb|JH737337.1|:subseq(347813,73300) exonerate:protein2genome:local exon 14402 14447 . + . insertions 0 ; deletions 0
gi|397458164|gb|JH737337.1|:subseq(347813,73300) exonerate:protein2genome:local splice5 14448 14449 . + . intron_id 1 ; splice_site "GG"
gi|397458164|gb|JH737337.1|:subseq(347813,73300) exonerate:protein2genome:local intron 14448 20392 . + . intron_id 1
gi|397458164|gb|JH737337.1|:subseq(347813,73300) exonerate:protein2genome:local splice3 20391 20392 . + . intron_id 0 ; splice_site "AG"
gi|397458164|gb|JH737337.1|:subseq(347813,73300) exonerate:protein2genome:local cds 20393 20436 . + .
gi|397458164|gb|JH737337.1|:subseq(347813,73300) exonerate:protein2genome:local exon 20393 20436 . + . insertions 0 ; deletions 0
gi|397458164|gb|JH737337.1|:subseq(347813,73300) exonerate:protein2genome:local splice5 20437 20438 . + . intron_id 2 ; splice_site "GT"
gi|397458164|gb|JH737337.1|:subseq(347813,73300) exonerate:protein2genome:local intron 20437 49990 . + . intron_id 2
gi|397458164|gb|JH737337.1|:subseq(347813,73300) exonerate:protein2genome:local splice3 49989 49990 . + . intron_id 1 ; splice_site "CG"
gi|397458164|gb|JH737337.1|:subseq(347813,73300) exonerate:protein2genome:local cds 49991 50189 . + .
gi|397458164|gb|JH737337.1|:subseq(347813,73300) exonerate:protein2genome:local exon 49991 50189 . + . insertions 0 ; deletions 0
gi|397458164|gb|JH737337.1|:subseq(347813,73300) exonerate:protein2genome:local splice5 50190 50191 . + . intron_id 3 ; splice_site "GT"
gi|397458164|gb|JH737337.1|:subseq(347813,73300) exonerate:protein2genome:local intron 50190 50276 . + . intron_id 3
gi|397458164|gb|JH737337.1|:subseq(347813,73300) exonerate:protein2genome:local splice3 50275 50276 . + . intron_id 2 ; splice_site "TG"
gi|397458164|gb|JH737337.1|:subseq(347813,73300) exonerate:protein2genome:local cds 50277 50434 . + .
gi|397458164|gb|JH737337.1|:subseq(347813,73300) exonerate:protein2genome:local exon 50277 50434 . + . insertions 0 ; deletions 0
gi|397458164|gb|JH737337.1|:subseq(347813,73300) exonerate:protein2genome:local splice5 50435 50436 . + . intron_id 4 ; splice_site "GT"
gi|397458164|gb|JH737337.1|:subseq(347813,73300) exonerate:protein2genome:local intron 50435 50636 . + . intron_id 4
gi|397458164|gb|JH737337.1|:subseq(347813,73300) exonerate:protein2genome:local splice3 50635 50636 . + . intron_id 3 ; splice_site "AG"
gi|397458164|gb|JH737337.1|:subseq(347813,73300) exonerate:protein2genome:local cds 50637 50744 . + .
gi|397458164|gb|JH737337.1|:subseq(347813,73300) exonerate:protein2genome:local exon 50637 50744 . + . insertions 0 ; deletions 0
gi|397458164|gb|JH737337.1|:subseq(347813,73300) exonerate:protein2genome:local splice5 50745 50746 . + . intron_id 5 ; splice_site "GT"
gi|397458164|gb|JH737337.1|:subseq(347813,73300) exonerate:protein2genome:local intron 50745 51773 . + . intron_id 5
gi|397458164|gb|JH737337.1|:subseq(347813,73300) exonerate:protein2genome:local splice3 51772 51773 . + . intron_id 4 ; splice_site "AG"
gi|397458164|gb|JH737337.1|:subseq(347813,73300) exonerate:protein2genome:local cds 51774 51928 . + .
gi|397458164|gb|JH737337.1|:subseq(347813,73300) exonerate:protein2genome:local exon 51774 51928 . + . insertions 0 ; deletions 0
gi|397458164|gb|JH737337.1|:subseq(347813,73300) exonerate:protein2genome:local splice5 51929 51930 . + . intron_id 6 ; splice_site "GT"
gi|397458164|gb|JH737337.1|:subseq(347813,73300) exonerate:protein2genome:local intron 51929 52125 . + . intron_id 6
gi|397458164|gb|JH737337.1|:subseq(347813,73300) exonerate:protein2genome:local splice3 52124 52125 . + . intron_id 5 ; splice_site "AG"
gi|397458164|gb|JH737337.1|:subseq(347813,73300) exonerate:protein2genome:local cds 52126 52216 . + .
gi|397458164|gb|JH737337.1|:subseq(347813,73300) exonerate:protein2genome:local exon 52126 52216 . + . insertions 0 ; deletions 0
gi|397458164|gb|JH737337.1|:subseq(347813,73300) exonerate:protein2genome:local splice5 52217 52218 . + . intron_id 7 ; splice_site "GT"
gi|397458164|gb|JH737337.1|:subseq(347813,73300) exonerate:protein2genome:local intron 52217 52296 . + . intron_id 7
gi|397458164|gb|JH737337.1|:subseq(347813,73300) exonerate:protein2genome:local splice3 52295 52296 . + . intron_id 6 ; splice_site "AG"
gi|397458164|gb|JH737337.1|:subseq(347813,73300) exonerate:protein2genome:local cds 52297 52396 . + .
gi|397458164|gb|JH737337.1|:subseq(347813,73300) exonerate:protein2genome:local exon 52297 52396 . + . insertions 0 ; deletions 0
gi|397458164|gb|JH737337.1|:subseq(347813,73300) exonerate:protein2genome:local splice5 52397 52398 . + . intron_id 8 ; splice_site "GT"
gi|397458164|gb|JH737337.1|:subseq(347813,73300) exonerate:protein2genome:local intron 52397 52675 . + . intron_id 8
gi|397458164|gb|JH737337.1|:subseq(347813,73300) exonerate:protein2genome:local splice3 52674 52675 . + . intron_id 7 ; splice_site "AG"
gi|397458164|gb|JH737337.1|:subseq(347813,73300) exonerate:protein2genome:local cds 52676 52888 . + .
gi|397458164|gb|JH737337.1|:subseq(347813,73300) exonerate:protein2genome:local exon 52676 52888 . + . insertions 3 ; deletions 0
gi|397458164|gb|JH737337.1|:subseq(347813,73300) exonerate:protein2genome:local splice5 52889 52890 . + . intron_id 9 ; splice_site "GT"
gi|397458164|gb|JH737337.1|:subseq(347813,73300) exonerate:protein2genome:local intron 52889 53347 . + . intron_id 9
gi|397458164|gb|JH737337.1|:subseq(347813,73300) exonerate:protein2genome:local splice3 53346 53347 . + . intron_id 8 ; splice_site "AG"
gi|397458164|gb|JH737337.1|:subseq(347813,73300) exonerate:protein2genome:local cds 53348 53565 . + .
gi|397458164|gb|JH737337.1|:subseq(347813,73300) exonerate:protein2genome:local exon 53348 53565 . + . insertions 0 ; deletions 0
gi|397458164|gb|JH737337.1|:subseq(347813,73300) exonerate:protein2genome:local similarity 14402 53565 1587 + . alignment_id 1 ; Query SPP00000064_2.0 ; Align 14402 2 45 ; Align 20395 18 42 ; Align 49991 32 198 ; Align 50279 99 156 ; Align 50637 151 108 ; Align 51774 187 153 ; Align 52127 239 90 ; Align 52297 269 99 ; Align 52678 303 168 ; Align 52849 359 39 ; Align 53350 373 216
# --- END OF GFF DUMP ---
#
-- completed exonerate analysis