Command line: [exonerate -m p2g --showtargetgff -q ./SelU3.fa -t SelU3.carpeta/genomic.fa]
Hostname: [ws116037]
C4 Alignment:
------------
Query: SPP00000117_2.0 # Protein # Selenoprotein U3 (SelU3) # Human (Homo sapiens)
Target: gi|472269622|gb|KB715067.1| Leptonychotes weddellii isolate WS11-02 unplaced genomic scaffold scaffold00361, whole genome shotgun sequence:[revcomp]
Model: protein2genome:local
Raw score: 785
Query range: 30 -> 226
Target range: 5295 -> 3111
31 : MetSerThrValAspLeuAlaArgValGlyAlaCysIleLeuLysHisAlaValThrGlyGl : 51
||||||||||||||||||||||||||||||||||||:!!|||||||||||||||||||||||
MetSerThrValAspLeuAlaArgValGlyAlaCysValLeuLysHisAlaValThrGlyGl
5295 : ATGAGCACGGTCGACCTTGCCCGCGTGGGCGCGTGTGTCCTGAAGCATGCGGTGACCGGGGA : 5235
52 : u >>>> Target Intron 1 >>>> AlaValGluLeuArgSerLeuTrpArgGluHi : 62
| 168 bp ||||||||||||||||||||||||||||||!!
u++ ++AlaValGluLeuArgSerLeuTrpArgGluGl
5234 : Ggt.........................agGCCGTGGAGCTGCGGAGTCTGTGGCGGGAGCA : 5034
63 : sAlaCysValValAlaGlyLeuArgArgPheGlyCysValValCysArgTrpIleAlaGlnA : 83
.|||||||||||||||||||||||||||||||||||| !||||||||||||||||||! !|
nAlaCysValValAlaGlyLeuArgArgPheGlyCysSerValCysArgTrpIleAlaProA
5033 : GGCGTGCGTGGTGGCCGGCCTGCGGCGCTTCGGCTGCTCGGTGTGTCGCTGGATCGCCCCGG : 4971
84 : spLeuSerSerLeuAlaGlyLeuLeuAspGlnHisGlyValArgLeuValGlyValGlyPro : 103
|||||||||||||| !|||||||||||||||||||||||||||||||||||||||||||||
spLeuSerSerLeuArgGlyLeuLeuAspGlnHisGlyValArgLeuValGlyValGlyPro
4970 : ACCTCAGCAGCCTCAGGGGGCTACTGGACCAGCATGGCGTGCGCCTGGTGGGCGTGGGGCCC : 4911
104 : GluAlaLeuGlyLeuGlnGluPheLeuAspGlyAspTyrPheAlaGly{G} >>>> Targ : 120
|||||||||||||||||||||||||||||||||! !||||||||||||{|}
GluAlaLeuGlyLeuGlnGluPheLeuAspGlyGlyTyrPheAlaGly{G}++
4910 : GAGGCCCTGGGCCTGCAGGAGTTCCTGGACGGGGGCTACTTCGCAGGA{G}gt......... : 4857
121 : et Intron 2 >>>> {lu}LeuTyrLeuAspGluSerLysGlnLeuTyrLysGluLeuG : 134
584 bp {||}||||||||||||||||||||||||!!!|||!:!|||||||
++{lu}LeuTyrLeuAspGluSerLysGlnPheTyrArgGluLeuG
4856 : ................ag{AG}CTCTACCTGGATGAAAGCAAGCAGTTCTACAGGGAGCTGG : 4234
135 : lyPheLys{Ar} >>>> Target Intron 3 >>>> {g}LeuTrpThrGlnAlaSer : 143
|||||!:!{||} 466 bp {|}! ! !! !||| !.!!
lyPheArg{Ar}++ -+{g}ProGlyLeuGlnArgGly
4233 : GCTTCAGA{AG}gt.........................gg{G}CCAGGGCTTCAGAGAGGA : 3741
144 : ProGluPheGlyGlnAlaThrTrpCysLeuArgArgTyrAsnSerLeuSerIleLeuProAl : 164
!!..! ! !! !::! ! !||||||||||||||||||||||||||||||:!!|||||
AlaArgAlaTrpThrSerGlnLeuCysLeuArgArgTyrAsnSerLeuSerIleValProAl
3740 : GCCAGGGCCTGGACAAGCCAGCTGTGTCTTCGCAGGTACAACAGCTTGAGCATTGTGCCCGC : 3678
165 : aAlaLeuGlyLysProValArgAspValAlaAlaLys >>>> Target Intron 4 >> : 177
||||||||||||||||||||||||||||||| !||| 57 bp
aAlaLeuGlyLysProValArgAspValAlaLeuLys++
3677 : CGCCCTGGGGAAGCCTGTGCGCGATGTGGCCCTCAAGgt....................... : 3637
178 : >> AlaLysAlaValGlyIleGlnGlyAsnLeuSerGlyAspLeuLeuGlnSerGlyGlyL : 196
|||||||||||||||||||||||||||||||||||||||||||||!!.||||||||||
++AlaLysAlaValGlyIleGlnGlyAsnLeuSerGlyAspLeuLeuHisSerGlyGlyL
3636 : ..agGCCAAAGCTGTTGGCATCCAGGGGAACCTGTCTGGGGACTTGCTGCACAGTGGAGGGC : 3525
197 : euLeuValValSerLys{G} >>>> Target Intron 5 >>>> {lu}ValProArg : 205
|||||||||||!!!|||{|} 321 bp {||}|||||||||
euLeuValValThrLys{G}++ ++{lu}ValProArg
3524 : TGCTGGTGGTTACCAAA{G}gt.........................ag{AA}GTCCCCAGG : 3177
206 : ArgLeuArgProGlnGlyAlaHisProAlaGlyProGlyHisLeuCysGlyGlyLeuCysGl : 226
|||||| !! !! !|||! !|||||||||||||||||||||||||||||||||||||||||
ArgLeuCysPheProGlyGluHisProAlaGlyProGlyHisLeuCysGlyGlyLeuCysGl
3176 : CGACTATGTTTCCCAGGAGAGCATCCTGCAGGCCCTGGGCATCTCTGCGGAGGGCTGTGCCA : 3114
227 : n : 226
|
n
3113 : G : 3112
vulgar: SPP00000117_2.0 30 226 . gi|472269622|gb|KB715067.1| 5295 3111 - 785 M 21 63 5 0 2 I 0 164 3 0 2 M 68 204 S 0 1 5 0 2 I 0 580 3 0 2 S 1 2 M 16 48 S 0 2 5 0 2 I 0 462 3 0 2 S 1 1 M 39 117 5 0 2 I 0 53 3 0 2 M 25 75 S 0 1 5 0 2 I 0 317 3 0 2 S 1 2 M 24 72
# --- 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|472269622|gb|KB715067.1| exonerate:protein2genome:local gene 3112 5295 785 - . gene_id 1 ; sequence SPP00000117_2.0 ; gene_orientation +
gi|472269622|gb|KB715067.1| exonerate:protein2genome:local cds 5233 5295 . - .
gi|472269622|gb|KB715067.1| exonerate:protein2genome:local exon 5233 5295 . - . insertions 0 ; deletions 0
gi|472269622|gb|KB715067.1| exonerate:protein2genome:local splice5 5231 5232 . - . intron_id 1 ; splice_site "GT"
gi|472269622|gb|KB715067.1| exonerate:protein2genome:local intron 5065 5232 . - . intron_id 1
gi|472269622|gb|KB715067.1| exonerate:protein2genome:local splice3 5065 5066 . - . intron_id 0 ; splice_site "AG"
gi|472269622|gb|KB715067.1| exonerate:protein2genome:local cds 4860 5064 . - .
gi|472269622|gb|KB715067.1| exonerate:protein2genome:local exon 4860 5064 . - . insertions 0 ; deletions 0
gi|472269622|gb|KB715067.1| exonerate:protein2genome:local splice5 4858 4859 . - . intron_id 2 ; splice_site "GT"
gi|472269622|gb|KB715067.1| exonerate:protein2genome:local intron 4276 4859 . - . intron_id 2
gi|472269622|gb|KB715067.1| exonerate:protein2genome:local splice3 4276 4277 . - . intron_id 1 ; splice_site "AG"
gi|472269622|gb|KB715067.1| exonerate:protein2genome:local cds 4224 4275 . - .
gi|472269622|gb|KB715067.1| exonerate:protein2genome:local exon 4224 4275 . - . insertions 0 ; deletions 0
gi|472269622|gb|KB715067.1| exonerate:protein2genome:local splice5 4222 4223 . - . intron_id 3 ; splice_site "GT"
gi|472269622|gb|KB715067.1| exonerate:protein2genome:local intron 3758 4223 . - . intron_id 3
gi|472269622|gb|KB715067.1| exonerate:protein2genome:local splice3 3758 3759 . - . intron_id 2 ; splice_site "GG"
gi|472269622|gb|KB715067.1| exonerate:protein2genome:local cds 3640 3757 . - .
gi|472269622|gb|KB715067.1| exonerate:protein2genome:local exon 3640 3757 . - . insertions 0 ; deletions 0
gi|472269622|gb|KB715067.1| exonerate:protein2genome:local splice5 3638 3639 . - . intron_id 4 ; splice_site "GT"
gi|472269622|gb|KB715067.1| exonerate:protein2genome:local intron 3583 3639 . - . intron_id 4
gi|472269622|gb|KB715067.1| exonerate:protein2genome:local splice3 3583 3584 . - . intron_id 3 ; splice_site "AG"
gi|472269622|gb|KB715067.1| exonerate:protein2genome:local cds 3507 3582 . - .
gi|472269622|gb|KB715067.1| exonerate:protein2genome:local exon 3507 3582 . - . insertions 0 ; deletions 0
gi|472269622|gb|KB715067.1| exonerate:protein2genome:local splice5 3505 3506 . - . intron_id 5 ; splice_site "GT"
gi|472269622|gb|KB715067.1| exonerate:protein2genome:local intron 3186 3506 . - . intron_id 5
gi|472269622|gb|KB715067.1| exonerate:protein2genome:local splice3 3186 3187 . - . intron_id 4 ; splice_site "AG"
gi|472269622|gb|KB715067.1| exonerate:protein2genome:local cds 3112 3185 . - .
gi|472269622|gb|KB715067.1| exonerate:protein2genome:local exon 3112 3185 . - . insertions 0 ; deletions 0
gi|472269622|gb|KB715067.1| exonerate:protein2genome:local similarity 3112 5295 785 - . alignment_id 1 ; Query SPP00000117_2.0 ; Align 5296 31 63 ; Align 5065 52 204 ; Align 4274 121 48 ; Align 3757 138 117 ; Align 3583 177 75 ; Align 3184 203 72
# --- END OF GFF DUMP ---
#
-- completed exonerate analysis