Sequence
atgc intronic sequence ATGC exonic sequence...gtatttggtttaaaaggctattgaacattagtcatgtggtaaactggaaatatctaaaattcctttagtttatcttatctttaaatttcttttccataagGGTTTTGTCACTGATGATGAGAGGGCTTTAGAGGAACTTTTTGGGGATGAGGAGAATTCTCGCAGAGGTGATGCATGTTTGAATGTGATGGCCACCCGTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0019g05000.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA05G03970.1 (Glycine max), 3'ss of exon 8
--gtatt-tggtttaaaaggctattg--aacattagtcatgtggta--aactggaaatatctaaaattcctttagtttatcttatctttaaatttcttttccataagGGTTTTGTCACTGATGATGAGAGGGCTTTAGAGGAACTTTTTGGGGATGAGGAGAATTCTCGCAGAGGTGATGCATGTTTGAATGTGATGGCCACCCGTA
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gctcattatggtttctttgttaatttctaatgccatccacatcacattatttggtgttgtc----attcttctgtgtaatgtaatctttgtcatgataatgca---gGGCTTCATTACAAACAATGAGAGAGCTTTAGTGGAGCTATTTGGGGATGAGGAGAATAATCGTAAAGCTGTTGCATGTTTAAATGTGATGGCTACTCGGA
upper sequence: Vv13s0019g05000.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA17G14450.1 (Glycine max), 3'ss of exon 7
----gtatttggtttaaaaggctattgaacattagtcatgtggtaaactggaaatatctaaaattcctttagtttatcttatctttaaatttcttttccataagGGTTTTGTCACTGATGATGAGAGGGCTTTAGAGGAACTTTTTGGGGATGAGGAGAATTCTCGCAGAGGTGATGCATGTTTGAATGTGATGGCCACCCGTA
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cattatggtttctttgttaatttctaatgccatcatcatcccattatttgggattgtc-attcttcttctgtgaaatgcaatctttgtcatgataatgca---gGGCTTCATTACAAACAATGAGAGAGCTTTAGTGGAGCTATTTGGGGATGAGGAGAATAATCGTAAAGCTGTTGCATGTTTAAATGTGATGGCTACTCGGA
upper sequence: Vv13s0019g05000.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA11G03230.1 (Glycine max), 3'ss of exon 7
gtatttggtttaaaaggctattgaacat-tagtcatgtggtaaactggaaatatc-taaaattcctttagtttatcttatctttaaatttcttttccata-agGGTTTTGTCACTGATGATGAGAGGGCTTTAGAGGAACTTTTTGGGGATGAGGAGAATTCTCGCAGAGGTGATGCATGTTTGAATGTGATGGCCACCCGTA
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--attgtgcttgttagggaaaaaaatatattttctaatgccatcatcattccattattggatgccttcaattt-tggggtgttttcttgtcatgttaatgcagGGTTTCATCACAAATAATGAGAGGGCATTAGAGGAGCTATTTGGGGATGAAGAGAATAATCATAAAGGTGTTACGTGTTTGAATGTGATGGCAAAACGGA
upper sequence: Vv13s0019g05000.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA01G42140.1 (Glycine max), 3'ss of exon 3
----gtatttggtttaaaaggctattgaacattagtcatgtggtaaactggaaatatctaaaattcctttagtttatcttatctttaaatttcttttccata-agGGTTTTGTCACTGATGATGAGAGGGCTTTAGAGGAACTTTTTGGGGATGAGGAGAATTCTCGCAGAGGTGATGCATGTTTGAATGTGATGGCCACCCGTA
|| || ||| | | || || | ||| | | | ||| || | || | ||| | | ||| | || | | || ||||||| |||| || |||||||||| |||||||| || ||||||||||| |||||| || | ||||| | | ||||||||||| ||||| | || |
aattgtgcctg--ttaggaattttttattattttctaatgcatcatcattccattatt--ggatgcattcaattt-tggggtgtttttttgtcatgttaatgcagGGTTTCATCACAAATAATGAGAGGGCATTAGAGGAGCTGTTTGGGGATGAAGAGAATAATCATAAAGGTGTTACGTGTTTGAATGTTATGGCAAAACGGA
upper sequence: Vv13s0019g05000.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT1G12360.1 (Arabidopsis thaliana), 3'ss of exon 7
------------------------------------------------------------gtatttggtttaaaa--ggctattgaacattagtcatgtggtaaactggaaat-----atctaaaattcctttagtttatcttatcttta-aatttcttttccataagGGTTTTGTCACTGATGATGAGAGGGCTTTAGAGGAACTTTTTGGGGATGAGGAGAATTCTCGCAGAGGTGATGCATGTTTGAATGTGATGGCCACCCGTA
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gtatgatcgttctgaatatcctgtgtttgtgcattttagtcccgtttatattggtccacattatatggtttgaaatggagtgtagcctgcgtatcatgttgttagtcgatgtttcatgatgtgaaagaggggcaagagataatttatttatgacaacttgtaca---gGGTTTCATAACCGATCATGAGCGAGCTTTAGAGGATCTTTTTGGTGATGAGGAAACTTCTCGAAAAGGCGATGCGTGCTTGAATGTGATGGCTTCTCGAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggaaatatctaaaattcctttagtttatcttatctttaaatttcttttccataagGGTTTTGTCACTGATGATGAGAGGGCTTTAGAGGAACTTTTTGGGGATGAGGAGAATTCTCGCAGAGGTGATGCATGTTTGAATGTGATGGCCACCCGTA
atctaaa putative branch site (score: 3)
tttcttttccat putative PPT
taaaattcctttagtt TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatttggtttaaaaggctattgaacattagtcatgtggtaaactggaaatatctaaaattcctttagtttatcttatctttaaatttcttttccataagGGTTTTGTCACTGATGATGAGAGGGCTTTAGAGGAACTTTTTGGGGATGAGGAGAATTCTCGCAGAGGTGATGCATGTTTGAATGTGATGGCCACCCGTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - -aaaaggc
- - - - - - - - - - - - - - - - catgtgg
- - - - - - - - - - - - - - - - - - - - - - -ggaaata
- - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaattc