Sequence
atgc intronic sequence ATGC exonic sequence...atatcaagtatttgcatttcataaaatttctgcctagcctgtcatccttgatccttgttacttatggtttagcatatttatgacacaactgtgattccagTGAAATGGGTGCACATTTATCACCTTGTGGGAGATTTTTAGCTGCCTGTGTTGCATGTGTGCTTCCTCATTTGGAAGCTGATCCTGGATTGCAAACACAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0005g04630.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G167886_T02 (Zea mays), 3'ss of exon 9
------atatcaagtatttgcatttcataaaatttctgcctagc--ctgtcatccttgatccttgttacttatggtttagcatatttatgacacaactgtgattccagTGAAATGGGTGCACATTTATCACCTTGTGGGAGATTTTTAGCTGCCTGTGTTGCATGTGTGCTTCCTCATTTGGAAGCTGATCCTGGATTGCAAACACAG
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ttggtaatattgagta---gcactt-atatcatctttgctagatttctatcgcacctgaagtttgagactcatttacttgaa-gtttctgtta-aatttt--ctgcagCGAAATGGGTACCCATGTTTCACCCTGTGGGCGATTTTTGGTTGCTTGTGTTGCATGTGTGCTGCCACACAGTTATGGTGGCCATGGAAGTCAGTTGCAT
upper sequence: Vv07s0005g04630.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA03G32620.2 (Glycine max), 3'ss of exon 8
atatcaagtatttgcatttcataaaatttctgcctagcctg-tcatccttgatccttgttacttatggtttagcatatttatgacacaactgtgattccagTGAAATGGGTGCACATTTATCACCTTGTGGGAGATTTTTAGCTGCCTGTGTTGCATGTGTGCTTCCTCATTTGGAAGCTGATCCTGGATTGCAAACACAG
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-catttggcattattacatcacaggcattatacttttttggattgaagtcagattgtatacttaatcagttagctgattcaatggaatttgccctttgcagTGAAATGGGTGCTCATTTTTCACCATGTGGTAGATTTTTAGCTGCCTGTGTTGCATGTGTGCTTCCTCATATAGAAGCAGATCCAGGATTACAAACTCCA
upper sequence: Vv07s0005g04630.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA19G35370.3 (Glycine max), 3'ss of exon 8
atatcaagtatttgcatttcataaaatttctgcctagcctg-tcatccttgatccttgttacttatggtttagcatatttatgacacaactgtgattccagTGAAATGGGTGCACATTTATCACCTTGTGGGAGATTTTTAGCTGCCTGTGTTGCATGTGTGCTTCCTCATTTGGAAGCTGATCCTGGATTGCAAACACAG
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-catttggcattattacattacaggcattatgcttttttggattgaagtcagattatatacttaatcggttagctgactcaatggaatttgccctttgcagTGAAATGGGTGCTCATTTTTCACCATGCGGTAGATTTTTAGCTGCCTGTGTTGCATGTATGCTTCCCCATATAGAAGCAGATCCAGGATTACAAACTCCA
upper sequence: Vv07s0005g04630.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT5G43930.3 (Arabidopsis thaliana), 3'ss of exon 8
----------atatcaagtatttgcatttcataaaatttctgccta--gcctgtcatccttgatccttgttacttatggtttagc-atatttatgacacaactgtgattccagTGAAATGGGTGCACATTTATCACCTTGTGGGAGATTTTTAGCTGCCTGTGTTGCATGTGTGCTTCCTCATTTGGAAGCTGATCCTGGATTGCAAACACAG
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gcaaagctccttctctgggtccttgatatcattctgttacacttgaatgcctatgatgctaagtt-ttactattggatgtatattgatatctctgcttctttt-tgtgttcagTGAAATGGGAGCTCATTATTCGCCATGTGGGAGATATTTAGCGGCCTGTGTTGCGTGTGTTTTTCCTCATGGTGAGATAGATCCTGGACTGCAGACACAA
upper sequence: Vv07s0005g04630.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT1G04140.2 (Arabidopsis thaliana), 3'ss of exon 8
--atatcaagtatttgcatt-tcataaaatttctgcctagcctgtcatccttgatccttgttacttatggtttag-catatttatgacacaactgtgattccagTGAAATGGGTGCACATTTATCACCTTGTGGGAGATTTTTAGCTGCCTGTGTTGCATGTGTGCTTCCTCATTTGGAAGCTGATCCTGGATTGCAAACACAG
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gtaaaatttctccttatatcgttgtacgatcttagatgatcgtgatgctatataatatttctccttttgatggagatacatgatgtgtgtgtttatcgttgcagTGAGATGGGAGCCCATTTTTCTCCATGTGGGAGATATTTAGCAGCCTGTGTTGCATGCGTTATTCCTCATGCTGAGACAGATCCAAGTTTGCAGACACTG
upper sequence: Vv07s0005g04630.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: PP1S58_234V6.1 (Physcomitrella patens), 3'ss of exon 9
atatcaagtatttgcatttcataaaatttctgcctagcctgtcatcct-tgatccttgttacttatggtttagcatatttatgacacaact-----gtgattc-----cagTGAAATGGGTGCACATTTATCACCTTGTGGGAGATTTTTAGCTGCCTGTGTTGCATGTGTGCTTCCTCATTTGGAAGCTGATCC-TGGATTGCAAACACAG
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-------caatttaca--ccctgaaattcct-cttgacttgagattttgcaatcttttgtgtttatc-tgtaacatcttcgcgtgttgaatattgtgtggttcgtgagcagTGAAATGGGTGCGCACTTTTCACCTTGTGGTCGATTTCTAGCTGCGTGTGTTGCCTGTGTGTTGCCCATGGCGGATTCTGATTCACGGCGTGGGAATACG- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccttgatccttgttacttatggtttagcatatttatgacacaactgtgattccagTGAAATGGGTGCACATTTATCACCTTGTGGGAGATTTTTAGCTGCCTGTGTTGCATGTGTGCTTCCTCATTTGGAAGCTGATCCTGGATTGCAAACACAG
ccttgat putative branch site (score: 5)
tttagcatatttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atatcaagtatttgcatttcataaaatttctgcctagcctgtcatccttgatccttgttacttatggtttagcatatttatgacacaactgtgattccagTGAAATGGGTGCACATTTATCACCTTGTGGGAGATTTTTAGCTGCCTGTGTTGCATGTGTGCTTCCTCATTTGGAAGCTGATCCTGGATTGCAAACACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- -tcaagta
- - - - - - -gcatttc
- - - - - - - - - - ataaaat
- - - - - - - - - - - - - - tctgcct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cttatgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gacacaa