Sequence
atgc intronic sequence ATGC exonic sequence...atctttatatgggattgtttagttcattgaattccattttttattgtgctgcatacatacattattattgaatttgaaaggaaaattgttggttgtgcagGTTAATGATGCTGTTCTTGCAGGTGACAATACACTCGTTTCCTGTTCTTCAGATACTACCCTCAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0030g01350.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA03G40360.1 (Glycine max), 3'ss of exon 3
atctttatatgggattgtttagttcattgaattccattttttattgtgctgcatacata-----cattattattgaatttgaaaggaaaattgttggttgtgcagGTTAATGATGCTGTTCTTGCAGGTGACAATACACTCGTTTCCTGTTCTTCAGATACTACCCTCAAG
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-ccctgtttcattagcatttaagttat---accctgttaggaatcctgcacaatctataacccttgcaacagctgagtatgtaagtgttatt-ttgttcttgcagGTTAATGATGCTGTTGTTGTAGGTGATAGTACACTTGTTTCTTGTTCTTCAGATACAACCCTTAAG
upper sequence: Vv14s0030g01350.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA03G40440.4 (Glycine max), 3'ss of exon 3
atctttatatgggattgtttagttcattgaat-tccattttttattgtgc-tgcatacatacat---tattattgaatttgaaaggaaaattgttggttgtgcagGTTAATGATGCTGTTCTTGCAGGTGACAATACACTCGTTTCCTGTTCTTCAGATACTACCCTCAAG
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----ttaagttataacccacaaaacatgacaccttaacaatccataacacatgcataacagcataagtacaatcgaatatgtaaatgctatt-ttattcttgcagGTTAATGATGCTGTTCTTGTTGGTGATAGTACACTTGTTTCTTGTTCTTCAGATACAACCCTTAAG
upper sequence: Vv14s0030g01350.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA19G42990.1 (Glycine max), 3'ss of exon 3
atctttatatgggattgtttagttcattgaattccattt------tttattgtgctgcatacatacattattattgaatttgaaaggaaaattgttggttgtgcagGTTAATGATGCTGTTCTTGCAGGTGACAATACACTCGTTTCCTGTTCTTCAGATACTACCCTCAAG
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---tttaagttataccattacccacaatgcatgacacctgcacaatctataacgctagcaaca-gcat-acaattgagtatgtaaatgttatt-ttattcttgcagGTTAATGATGCTGTTCTTGTTGGTGATAGCACACTTGTTTCTTGTTCTTCAGATACAACCCTTAAG
upper sequence: Vv14s0030g01350.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA19G43070.1 (Glycine max), 3'ss of exon 3
---atctttatatgggattgtttagttcattga-attccattttttattgtgctgcatacatacattattattgaatttgaaaggaaaattgttggttgtgcagGTTAATGATGCTGTTCTTGCAGGTGACAATACACTCGTTTCCTGTTCTTCAGATACTACCCTCAAG
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taaagttataactcacaaaacatgacaccttaacaatccataacacat-gcacaaca-gcata-agtacaattgaatatgtaaatgttatt-tcattctttcagGTTAATGATGCTGTTCTTGTTGGTGATAGTACACTTGTTTCTTGTTCCTCAGATACAACCCTTAAG
upper sequence: Vv14s0030g01350.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA10G30050.1 (Glycine max), 3'ss of exon 2
atctttatatgggattgtt--tagttcattgaattccattttttattgtgctgcatacatacattattattgaatttgaaaggaaaattgttggttgtgcagGTTAATGATGCTGTTCTTGCAGGTGACAATACACTCGTTTCCTGTTCTTCAGATACTACCCTCAAG
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-ggaataaatagcttttttaccaaccaaacaaatatatctacacaatttgcaatgtaagttaaatag-atagaaattgctttttatttttttatttttgcagGTTAATGATGTTGTTCTTGTTGGTGATAATGTTCTTGTTTCGTGTTCTTCAGATACAACCCTTAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtgctgcatacatacattattattgaatttgaaaggaaaattgttggttgtgcagGTTAATGATGCTGTTCTTGCAGGTGACAATACACTCGTTTCCTGTTCTTCAGATACTACCCTCAAG
atacatacattattat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atctttatatgggattgtttagttcattgaattccattttttattgtgctgcatacatacattattattgaatttgaaaggaaaattgttggttgtgcagGTTAATGATGCTGTTCTTGCAGGTGACAATACACTCGTTTCCTGTTCTTCAGATACTACCCTCAAG
- - - - - - - - - - - - - - - - -ccatttt
- - - - - - - - - - - - - - - - - - - - - - - tgctgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - acataca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggaaaat