Sequence
atgc intronic sequence ATGC exonic sequence...aaaagtttgtggccttgagtagtaatgagcccactttgtttcagtcatcagcccaattgaggcccaatattgatgtatgcaaacaatggaattgtcacagGTTACCTCAAGGAAGGATCAAGAGCAGTACTGGGCAGACAGAAGCAAGCCATACAGATACATACCAGTCTCGGAGTTTGCAAACCGGTTCAAGAGCTTCC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0002g03550.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G366146_T01 (Zea mays), 3'ss of exon 3
-aaaagtttgtggccttgagtagtaatgagcccactttgtttcagtcatcagcccaattgaggcccaatattgatgtatgcaaacaatggaattgtcacagGTTACCTCAAGGAAGGATCAAGAGCAGTACTGGGCAGACAGAAGCAAGCCATACAGATACATACCAGTCTCGGAGTTTGCAAACCGGTTCAAGAGCTTCC
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gtagcattcatcac-ttgtttagtaatcacatcatatcctttgaaagctcagttta--tgaattgca-tgacaacctattctt----tggacactttccagGTAACATCAAGGAAGGATCAGGAGCAGTACTGGGCTGACAAGCAGAGGCCTTACAGATACATTTCGGTGCCAGAATTTGCACAGCGGTTTCAACGGTTCC
upper sequence: Vv09s0002g03550.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA07G01860.1 (Glycine max), 3'ss of exon 9
aaaagtttgtggccttgagtagtaa--tgagcccactttgtttcagtcatcagcccaattgaggcccaatattgatgtatgcaaacaatggaattgtcacagGTTACCTCAAGGAAGGATCAAGAGCAGTACTGGGCAGACAGAAGCAAGCCATACAGATACATACCAGTCTCGGAGTTTGCAAACCGGTTCAAGAGCTTCC
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ctcatactgtaactttttggaataagttggtcttaattatatataaaagaaaggagtaaggggaattagaattaca--atgctacttggaaattttgaacagGTTACCTCAAGGAAGGATCAGGAGCAATACTGGGCAGACAAAAACATGCCATACCGTTATGTTACAGTGACAGAATTTGCAAACAAGTTCAAGAGATTCC
upper sequence: Vv09s0002g03550.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA08G21540.2 (Glycine max), 3'ss of exon 8
aaaagtttgtggccttgagtagtaatgagcccactttgtttcagtcatcagcccaattgaggcccaatattgatgtatgcaaacaatggaat-tgtcacagGTTACCTCAAGGAAGGATCAAGAGCAGTACTGGGCAGACAGAAGCAAGCCATACAGATACATACCAGTCTCGGAGTTTGCAAACCGGTTCAAGAGCTTCC
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aaaacatgcaggctctctctgatgatgatgtta-tttaaaaaaaaaaaaaaaaagagtaagggcaattagaattacaatgttactttgaaatattgaacagGTTACCTCAAGGAAGGACCAAGAGCAGTATTGGGCAGACAAAAACATGCCATACCGTTATGTTACAGTGACTGAATTTGCAAACAAGTTCAAGAGATTCC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.catcagcccaattgaggcccaatattgatgtatgcaaacaatggaattgtcacagGTTACCTCAAGGAAGGATCAAGAGCAGTACTGGGCAGACAGAAGCAAGCCATACAGATACATACCAGTCTCGGAGTTTGCAAACCGGTTCAAGAGCTTCC
tattgat putative branch site (score: 3)
aatattgat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaaagtttgtggccttgagtagtaatgagcccactttgtttcagtcatcagcccaattgaggcccaatattgatgtatgcaaacaatggaattgtcacagGTTACCTCAAGGAAGGATCAAGAGCAGTACTGGGCAGACAGAAGCAAGCCATACAGATACATACCAGTCTCGGAGTTTGCAAACCGGTTCAAGAGCTTCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - ccttgag
- - - - - - - - - - - - - - -cccactt
- - - - - - - - - - - - - - - - - - - - - - - - cagccca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aggccca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtatgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaacaat