Sequence
atgc intronic sequence ATGC exonic sequencegtgcaccacaatgtttggcatgtgactcatctcttttgatgattagaattcatgctatcatgttctgatcccttgtaatctttctttgcttctccttcaattttagCCTGAAAATCTACTTCTTGATTCGAATGGAAATTTGAAGGTTTCTGATTTTGGACTTAGTGCATTGCCTAAACAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0016g05420.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os06g40370.1 (Oryza sativa), 3'ss of exon 4
gtgcaccacaatgtttggcatgtgactcatctcttttgatgattagaattcatgctatcatgttctgatcccttgtaatctttctttgcttctccttcaattttagCCTGAAAATCTACTTCTTGATTCGAATGGAAATTTGAAGGTTTCTGATTTTGGACTTAGTGCATTGCCTAAACAA
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------------gtccgttac-tgataagagacacttggctatcatttgtcctattcactaggtgcaatatctcatgcttaccctttttttgggcatgttatgtagCCTGAAAACCTGCTTCTTGACTCACGTGGAAACTTGAAAGTTTCTGATTTTGGACTTAGCACTTTGGCCCAGAAA
upper sequence: Vv11s0016g05420.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G137569_T03 (Zea mays), 3'ss of exon 3
gtgcaccacaatgtttggcatgtgactcatctcttttgatgattagaattcatgctatcat--gttctgatcccttgtaatctttctttgcttctccttcaattttagCCTGAAAATCTACTTCTTGATTCGAATGGAAATTTGAAGGTTTCTGATTTTGGACTTAGTGCATTGCCTAAACAA
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-----------------gtctgtctttgataactgatggaagtattactttaggtattcattaattacataccttaacactgacagtttgggcattgttc---tgtagCCTGAAAATATGCTTCTTGACTCACGTGGAAACTTAAAAGTTTCTGATTTTGGACTTAGTACACTGTCTCAGAAT
upper sequence: Vv11s0016g05420.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA13G23500.1 (Glycine max), 3'ss of exon 4
gtgcaccacaatgtttggcatgtg-----------actcatctcttttgatgattagaattcatgctatca--tgttctg-atcccttgtaatc--tttctttgcttctccttcaattttagCCTGAAAATCTACTTCTTGATTCGAATGGAAATTTGAAGGTTTCTGATTTTGGACTTAGTGCATTGCCTAAACAA
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gtgaaagacaatattgtgtgtgtgtgtgtgtttgtgtttatgtttttgtgtggtaaatgttttaacttttaaccattttgtgtctgtcttgatcaatttgctttcttcccttttgat---agCCTGAAAATCTTCTTCTTGATGCTTACGGAAATTTGAAGGTTTCTGACTTTGGATTGAGTGCATTGACTAAACAG
upper sequence: Vv11s0016g05420.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA17G12250.1 (Glycine max), 3'ss of exon 4
gtgcaccacaatgtttggcatgtgactcatctctttt---gatgattagaattcatgctatca--tgttctg-atcccttgtaatc--tttctttgcttctccttcaattttagCCTGAAAATCTACTTCTTGATTCGAATGGAAATTTGAAGGTTTCTGATTTTGGACTTAGTGCATTGCCTAAACAA
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gtgaaagacaatattatgtgtgtgttatatatgtttttgctatagtaaatgttttaacttttaaccattttgtgtttgtcttgatcaatttgctttcttcccttttgat---agCCTGAAAATCTTCTTCTTGATGCTTACGGAAATTTGAAGGTTTCTGACTTTGGATTGAGTGCATTGACTAAACAG
upper sequence: Vv11s0016g05420.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT5G35410.1 (Arabidopsis thaliana), 3'ss of exon 5
gtgcaccacaatgtttggcatgtgactcatctcttttgatgattagaattcatgctatcatgttctgatcc---cttgtaatctttct-ttgcttctccttcaattttagCCTGAAAATCTACTTCTTGATTCGAATGGAAATTTGAAGGTTTCTGATTTTGGACTTAGTGCATTGCCTAAACAA
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----------gtaaa-gacgtgtttttgtttaccaatattcctcagaat--atctcactgcgttgcaatccagacttgatatttttgtgtcgctatgttatgttatctagCCAGAAAATCTTTTACTCGATACAAATGGAAATCTGAAGGTTTCGGATTTCGGACTCAGTGCATTGCCTCAGGAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgctatcatgttctgatcccttgtaatctttctttgcttctccttcaattttagCCTGAAAATCTACTTCTTGATTCGAATGGAAATTTGAAGGTTTCTGATTTTGGACTTAGTGCATTGCCTAAACAA
ttctgat putative branch site (score: 3)
tcccttgtaatctttc CT-rich tract
ttcaatttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgcaccacaatgtttggcatgtgactcatctcttttgatgattagaattcatgctatcatgttctgatcccttgtaatctttctttgcttctccttcaattttagCCTGAAAATCTACTTCTTGATTCGAATGGAAATTTGAAGGTTTCTGATTTTGGACTTAGTGCATTGCCTAAACAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG