Sequence
atgc intronic sequence ATGC exonic sequencegtatgaacttttaggctacagtagtatatcagaaagatgtgatgggaaaggagaagaaaatttctaaaaatttggttgctttatcaggctatttcagcaattttcttactgacttttttgagtggttttgtagGCAGAAGGGATTTTTCGGATAAACCCGGAGAATAGCCAAGAAGAGATTGTGAGGGACCAGCTGAACAGGGGCATTGTGCCCACTGATATTGATGTTCACT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0104g01120.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os12g34840.1 (Oryza sativa), 3'ss of exon 2
gtatgaacttttaggctacagtagtatatcagaaagatgtgatgggaaaggagaagaaaatttctaaaaatttggttgc-tttatcaggctatttcagcaattttcttactgacttttttgagt---ggttttgtagGCAGAAGGGATTTTTCGGATAAACCCGGAGAATAGCCAAGAAGAGATTGTGAGGGACCAGCTGAACAGGGGCATTGTGCCCACTGATATTGATGTTCACT
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----------------------------------------gtcaggcatcacaagttcacttgttgttcctttgactctgtttgatatgcatttacagttatggatttgcggcgcattctgagttttgccttttcagGCTGAAGGAATCTTTCGCATAAACCCGGAAAATGACCAAGAGGAGCATGTGAGGGACCAGCTGAACAAAGGAGTTGTCCCTGAGGACATTGATGTTCACT
upper sequence: Vv07s0104g01120.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os07g22580.1 (Oryza sativa), 3'ss of exon 2
---gtatgaacttttaggctacagtagtatatcagaaagatgtgatgggaaaggagaagaaaatttctaaaaatttggttgctttatcaggctatttcagc---aattttcttactgacttt--tttgagtggttttgtagGCAGAAGGGATTTTTCGGATAAACCCGGAGAATAGCCAAGAAGAGATTGTGAGGGACCAGCTGAACAGGGGCATTGTGCCCACTGATATTGATGTTCACT
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gttgtatgaacaacaaatcag----agtctctctcactggaattctccattaatccatttttctttggagaaatttcagttcggagctaggc-gtctcgatgtgagctaagttagtaaatttaattttgttcgttatctagGCAGAAGGGATCTTCCGTATCACCCCTGAGAACAGCCAGGAGGAGAATGTCAGGGAGCAGCTTAACAGGGGCCTTGTGCCCGACGACATCGATGTGCATT
upper sequence: Vv07s0104g01120.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA10G02720.1 (Glycine max), 3'ss of exon 2
gtatgaacttttaggctacagtagtatatcagaaagatgtgatgggaaaggagaagaaaatttctaaaaatttggttgctttatcaggctatttcagcaattttcttactgacttttttgagtggttttgtagGCAGAAGGGATTTTTCGGATAAACCCGGAGAATAGCCAAGAAGAGATTGTGAGGGACCAGCTGAACAGGGGCATTGTGCCCACTGATATTGATGTTCACT
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--------gtactgactgta-tagtatattttggcatcatttgtaacaccaaactctaagctcttgtgcaagtggtgacaagtgagtttcatactaactatctttttgttttttctcttcaatcaattttcagGCTGAGGGTATATTTCGTATAAACCCCGAAAATAGTCAAGAGGAGCATGTGAGGGACCAGTTGAATAGGGGCATTGTGCCGGATGATATTGATGTCCACT
upper sequence: Vv07s0104g01120.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA02G17070.1 (Glycine max), 3'ss of exon 2
gtatgaacttttaggctacagtagtatatcagaaagatgtgatgggaaaggagaagaaaatttctaaaaatttggttgctttat-caggctatttcagcaattttcttactgacttttttgagtggttttgtagGCAGAAGGGATTTTTCGGATAAACCCGGAGAATAGCCAAGAAGAGATTGTGAGGGACCAGCTGAACAGGGGCATTGTGCCCACTGATATTGATGTTCACT
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--------gtactgactgt-gtgatatattttgtcatcatt-tgtaacaccaagctctaagctcttgcaagtagtgagtttcatactaactatctttttgttgttttt-----ttcttttcaatcaattttcagGCTGAAGGTATATTTCGTATTAACCCTGAAAATAGTCAAGAGGAGCATGTGAGGGACCAGTTGAATAGGGGCATTGTGCCGGATGACATTGATGTCCACT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctttatcaggctatttcagcaattttcttactgacttttttgagtggttttgtagGCAGAAGGGATTTTTCGGATAAACCCGGAGAATAGCCAAGAAGAGATTGTGAGGGACCAGCTGAACAGGGGCATTGTGCCCACTGATATTGATGTTCACT
tactgac putative branch site (score: 1)
aattttctta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgaacttttaggctacagtagtatatcagaaagatgtgatgggaaaggagaagaaaatttctaaaaatttggttgctttatcaggctatttcagcaattttcttactgacttttttgagtggttttgtagGCAGAAGGGATTTTTCGGATAAACCCGGAGAATAGCCAAGAAGAGATTGTGAGGGACCAGCTGAACAGGGGCATTGTGCCCACTGATATTGATGTTCACT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA