Sequence
atgc intronic sequence ATGC exonic sequencegtgatctactttagattgtttggtctaaaatctgttgcaggcctgcaatctaaatcttacatagtattgatattctagtgttatgcatcttatagATCATTTTCAGGGATTTCAAATCCTCCAATATTTTACTGGATGAGGAATGGAATGCAAAGCTGTCAGACTTTGGATTGGCCAGGCTGGGCCCCTCAGAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0040g01570.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os02g57420.1 (Oryza sativa), 3'ss of exon 3
-------------------------------------------------------------gtgatctactttagattgtttggtctaaaatct-----gttgcaggcctgcaatctaaatcttacatagtattgatatt-ctagtgtta-tgcat-cttatagATCATTTTCAGGGATTTCAAATCCTCCAATATTTTACTGGATGAGGAATGGAATGCAAAGCTGTCAGACTTTGGATTGGCCAGGCTGGGCCCCTCAGAAG
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gtaactcttttgctctctgatgatgaaaactgctaccagttgtacctgaaacagttgtgcaatgttgcatcacttcctatctgcaatgaaatgttgaaagatgcacttctttaggtttttttgtctgctatatctatggtgctaaacttaatatatacatgcagGTTATCTTCCGTGACCTAAAAACATCTAACATTCTGTTAGATGAGAACTGGAATGCAAAGTTGTCTGACTTTGGATTGGCTAGGCATGGACCATCAGAAG
upper sequence: Vv08s0040g01570.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA03G33950.1 (Glycine max), 3'ss of exon 2
gtgatctactttagattgtttggtctaaaatc-tgttgca--ggcctgcaatctaaatcttacatagtattgat--attctag-tgtta-tgcatcttatagATCATTTTCAGGGATTTCAAATCCTCCAATATTTTACTGGATGAGGAATGGAATGCAAAGCTGTCAGACTTTGGATTGGCCAGGCTGGGCCCCTCAGAAG
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--gaattaaatttgaatacttcgaccaatgtcatgctaaatttatttaccattcagatctgtggtgcagttgattgatgctaactgtgagtgcattgtgtagATAATTTTCAGAGATTTCAAATCTTCAAATATCCTATTGGATGAACAGTGGAATGCAAAGCTATCAGACTTTGGGTTAGCAAGGTTGGGACCATCAGATG
upper sequence: Vv08s0040g01570.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA19G36700.1 (Glycine max), 3'ss of exon 3
gtgatctactttagattgtttggtctaaaatctgttgca--ggcctgcaatctaaatcttacatagtattgat--attctag-tgtta-tgcatcttatagATCATTTTCAGGGATTTCAAATCCTCCAATATTTTACTGGATGAGGAATGGAATGCAAAGCTGTCAGACTTTGGATTGGCCAGGCTGGGCCCCTCAGAAG
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-gaattaaatttgaatactttgaccaatgccatgctaaatttatttaccattcaaatctgtggtgcagttgattaatgctaactgtgagtgcattgtgtagATAATTTTCAGAGATTTCAAATCTTCAAATATCCTATTGGATGAACAGTGGAATGCTAAGCTATCAGACTTTGGGTTAGCAAGGTTGGGACCATCAGATG
upper sequence: Vv08s0040g01570.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA10G06540.1 (Glycine max), 3'ss of exon 4
-----------------------------------------------gtgatcta-ctttagattgtttggtctaaaatctgttgcag-------gcctgcaatctaa--atcttacatagt-----attgatattcta-----gtgttatgc-atcttatagATCATTTT-CAGGGATTTCAAATCCTCCAATATT-TTACTGGATGAGGAATGGAATGCAAAGCTGTCAGACTTTGGATTGGCCAGGCTGGGCCCCTCAGAAG
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gtagaaacttgttttgatcccatttagacattccaaaagaaaaaaaattaaggaagctgtaagtagctaaattggacttcttttgaaactactttgtttgctatttaaacatgttgtgcagtttgttattgctgtgctaactatgtgttgggttgggttttagATAATTTTTCAGAGATTTCAAATCTTCAAATATCCTTTCTGGACGAGCAGTGGAATGCAAAGCTGTCAGACTTCGGGCTAGCTAGATTGGGACCATCTGA-- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcctgcaatctaaatcttacatagtattgatattctagtgttatgcatcttatagATCATTTTCAGGGATTTCAAATCCTCCAATATTTTACTGGATGAGGAATGGAATGCAAAGCTGTCAGACTTTGGATTGGCCAGGCTGGGCCCCTCAGAAG
tattgat putative branch site (score: 3)
atagtattgatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgatctactttagattgtttggtctaaaatctgttgcaggcctgcaatctaaatcttacatagtattgatattctagtgttatgcatcttatagATCATTTTCAGGGATTTCAAATCCTCCAATATTTTACTGGATGAGGAATGGAATGCAAAGCTGTCAGACTTTGGATTGGCCAGGCTGGGCCCCTCAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG