Sequence
atgc intronic sequence ATGC exonic sequencegtaaaatattacattaacctcatgtgttttaaactgcctagctcaattgttgtgcatgttgcatcttttccaagaataagctccgcttttcatttagttgattcaggtttatattgatttgcatagGCCACCAGAATTGCTGCTAGGAGCCACAAAGTATGGCCCTGCTGTTGACATGTGGTCCGTCGGTTGTATCTTTGCTGAGCTTTTGTATGGAAAACCAATT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0141g00280.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os05g32360.1 (Oryza sativa), 3'ss of exon 7
gtaaaatattacattaacctcatgtgttttaaactgcctagctcaattgttgtgcatgttgcatcttttccaagaataagctccgcttttcatttagttgattcagg----tttatattgatttgcatagGCCACCAGAATTGCTGCTAGGAGCCACAAAGTATGGCCCTGCTGTTGACATGTGGTCCGTCGGTTGTATCTTTGCTGAGCTTTTGTATGGAAAACCAATT
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-----------------------gtattgcagaattatgaacttg-ccattga--attttgcatattgtgttatggta---tttagtttttgcttggatcatgctgaccatttgccaatgattttca--gACCTCCAGAGTTGCTGCTCGGAAGCACCAAGTATGGACCAGCAGTTGACATGTGGTCTGTCGGTTGTATTTTTGCAGAGCTTCTCAATGGAAAGCCAATT
upper sequence: Vv07s0141g00280.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os01g72790.1 (Oryza sativa), 3'ss of exon 7
gtaaaatattacattaacctcatgtgttttaaactgcctagctcaattgttgtgcatgttgcatcttttccaagaataag-ctccgcttttcatttagttgat-tcaggtttatattgatttgcatagGCCACCAGAATTGCTGCTAGGAGCCACAAAGTATGGCCCTGCTGTTGACATGTGGTCCGTCGGTTGTATCTTTGCTGAGCTTTTGTATGGAAAACCAATT
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----------------------------------------gtatggaaacttcccatgaggaggttcttccattcatatttctcttactttcttttcattgttctctctctcttatttgtgtatgcagACCTCCTGAGTTGTTACTCGGGAGCACGAGGTATGGTCCAGCCGTTGACATGTGGTCAGTGGGTTGTATTTTTGCTGAGCTTCTCAATGGAAAGCCAATA
upper sequence: Vv07s0141g00280.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G019267_T01 (Zea mays), 3'ss of exon 7
gtaaaatattacattaacctcatgtgttttaaactgcctagctcaattgttgtgcatgttgcatcttttccaagaataagct--ccgcttttcatttagttgattcaggtttatattgatttgc-atagGCCACCAGAATTGCTGCTAGGAGCCACAAAGTATGGCCCTGCTGTTGACATGTGGTCCGTCGGTTGTATCTTTGCTGAGCTTTTGTATGGAAAACCAATT
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-------------------------gtatagtattgtaaaaccatggttttgagaa----acattgttgccaaacaggcccttacagttgttgttgcaagcttcttaagtcttcctggattggctgcagACCTCCAGAGTTGCTACTTGGAAGCACAAAGTATGGCCCAGCCGTTGACATGTGGTCAGTGGGCTGTATTTTTGCAGAACTTCTCAATGGGAAGCCAATA
upper sequence: Vv07s0141g00280.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT5G64960.2 (Arabidopsis thaliana), 3'ss of exon 6
gtaaaatattacattaacctcatgtgttttaaactgcctagctcaattgttgtgcatgttgcatcttttccaagaataagctccgcttttcatttagttgattcaggtttatattgatttgcatagGCCACCAGAATTGCTGCTAGGAGCCACAAAGTATGGCCCTGCTGTTGACATGTGGTCCGTCGGTTGTATCTTTGCTGAGCTTTTGTATGGAAAACCAATT
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--------gtatgtatgcctacaaactttgaagttatata-caaaaaagtgacaaagaataagtattgctta----tacgtgcagctttttctctactt-atgcat-----tgtttattgctgtagGCCCCCTGAATTGTTACTTGGTGCAACTAAATATGGACCAGCGATTGACATGTGGTCAGTTGGATGCATATTTGCTGAACTTTTGAATGGAAAACCAATC
upper sequence: Vv07s0141g00280.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT5G10270.1 (Arabidopsis thaliana), 3'ss of exon 7
gtaaaatattacattaacctcatgtgttttaaactgcctagctcaattgttgtgcatgttgcatcttttccaagaataagctccgcttttcatttagttgattcaggtttatattgatttgcatagGCCACCAGAATTGCTGCTAGGAGCCACAAAGTATGGCCCTGCTGTTGACATGTGGTCCGTCGGTTGTATCTTTGCTGAGCTTTTGTATGGAAAACCAATT
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gtaagcctaaaaatcgtcattcaaagttt-acatgatatacatagatagtctta-atattatggtctttgcta--attcattgttattactactttgctgatttacatatattgcggc------agGCCCCCTGAATTACTACTTGGGGCTACAAAATATGGCCCAGCAATTGACATGTGGTCGGTTGGTTGCATATTTGCCGAACTTTTGCATGCAAAACCAATC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aagaataagctccgcttttcatttagttgattcaggtttatattgatttgcatagGCCACCAGAATTGCTGCTAGGAGCCACAAAGTATGGCCCTGCTGTTGACATGTGGTCCGTCGGTTGTATCTTTGCTGAGCTTTTGTATGGAAAACCAATT
tattgat putative branch site (score: 3)
tttatattgattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaaatattacattaacctcatgtgttttaaactgcctagctcaattgttgtgcatgttgcatcttttccaagaataagctccgcttttcatttagttgattcaggtttatattgatttgcatagGCCACCAGAATTGCTGCTAGGAGCCACAAAGTATGGCCCTGCTGTTGACATGTGGTCCGTCGGTTGTATCTTTGCTGAGCTTTTGTATGGAAAACCAATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT