Sequence
atgc intronic sequence ATGC exonic sequence...ctagtacaattgactatgcaattcattgtgaattaaattgatacagtgctttctgtagattgatgaatcataatcagcaaggtgaatatgttttgtgcagCTTCTGGTGAGCCACCATTACTTCTAGCAGTTTCAGTTCACTGTGCTACAAGGGCAGCTATTAGAGAAGCCCGACAACAGCTTCTTTCCTGGACTGGGCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0009g00770.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA02G44000.1 (Glycine max), 3'ss of exon 9
ctagtacaattgactatgcaat-tcattgtgaattaaattgatacagtgctttctgtagattgatgaatcat-aatcagcaaggtgaatatgt-tttgtgcagCTTCTGGTGAGCCACCATTACTTCTAGCAGTTTCAGTTCACTGTGCTACAAGGGCAGCTATTAGAGAAGCCCGACAACAGCTTCTTTCCTGGACTGGGCT
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---atatatgttattgtggactgttaataagattgagaaagcttcagttattgtggttcaaaaatcaagaattaatgaaagaaattgaaatttatttgtgcagCTTCCGGTGAACCACCACTACTTCTAGCAGCTTCTGTTCACTGTGCAACAAGAGCAGCTGCAAAAGAAGCCAAGAAGCAGCTTCTATCATGGAGCAACTT
upper sequence: Vv06s0009g00770.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA14G04950.1 (Glycine max), 3'ss of exon 9
---ctag--tacaattgactatgcaattcat--tgtgaattaaattgatacagtgctttctgtagattgatgaatcataatcagcaaggtgaatatgttttgtgcagCTTCTGGTGAGCCACCATTACTTCTAGCAGTTTCAGTTCACTGTGCTACAAGGGCAGCTATTAGAGAAGCCCGACAACAGCTTCTTTCCTGGACTGGGCT
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gttgcagcctatattttattttacagtttatactgtcaataagattgagaaag--ctttactcatttcggtt-----tgaaaacctaaatttgttggcgcaatgcagCTTCTGGTGAGCCACCATTACTTCTAGCAGCCTCCATTCACTGTGCCACAAGAGCAGCTGTAAAAGAGGCAAGGAAACAGCTTCTTTCATGGAGCAACCA
upper sequence: Vv06s0009g00770.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA02G44000.2 (Glycine max), 3'ss of exon 4
ctagtacaattgactatgcaattcattgtgaattaaattgatacagtgctttctgtagattgatgaatcataatc------agcaaggtgaatatgttttgtgcagCTTCTGGTGAGCCACCATTACTTCTAGCAGTTTCAGTTCACTGTGCTACAAGGGCAGCTATTAGAGAAGCCCGACAACAGCTTCTTTCCTGGACTGGGCT
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----tatgttttattttagacttt-taataagatggagaaa-acatcacttattccagtttgaaaatctaaaatgaaaaaaaataaactgaaatttgttgctgcagCTTCTGGCGAGCCGCCATTACTTCTAGCAGCTTCCATTCACTGTGCCACAAGAGCAGCTGTAAAAGAAGCAAGGAAACAGCTTCTTTCATGGAGCAACCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtgctttctgtagattgatgaatcataatcagcaaggtgaatatgttttgtgcagCTTCTGGTGAGCCACCATTACTTCTAGCAGTTTCAGTTCACTGTGCTACAAGGGCAGCTATTAGAGAAGCCCGACAACAGCTTCTTTCCTGGACTGGGCT
gattgat putative branch site (score: 4)
aatatgtttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctagtacaattgactatgcaattcattgtgaattaaattgatacagtgctttctgtagattgatgaatcataatcagcaaggtgaatatgttttgtgcagCTTCTGGTGAGCCACCATTACTTCTAGCAGTTTCAGTTCACTGTGCTACAAGGGCAGCTATTAGAGAAGCCCGACAACAGCTTCTTTCCTGGACTGGGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - -ctatgca
- - - - - - - - - - - - - - - aattaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tcagcaa