Sequence
atgc intronic sequence ATGC exonic sequence...agcattactacaactaataccttgggcttctactatattacaaatatggtgaaaattgaagtcatgacttatttgaacctcttttttaatgaaagaacagGTCCAGGATGTGGAAGGCGTTGAACTATGTGGAACCCTGAAGAATGTTGTGGCCATTGCAGCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0219g00280.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os01g74000.1 (Oryza sativa), 3'ss of exon 5
---agcattactacaactaataccttgggcttctactatattacaaatatggtgaa-aattgaagtcatgacttatttgaacctcttttttaatgaaagaacagGTCCAGGATGTGGAAGGCGTTGAACTATGTGGAACCCTGAAGAATGTTGTGGCCATTGCAGCAG
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gtaagttcaaccataa--aatctcattgaaacaaaccctctcaccagagtgattcctagcagtggttcagcagaaaatgaaaaacctgtgtccttcatgtacagGTAGAGGATATTGAAGGAGTTGAATTATGTGGAACACTGAAAAATGTCGTGGCCATTGCAGCAG
upper sequence: Vv14s0219g00280.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA05G24070.1 (Glycine max), 3'ss of exon 8
agcattactacaactaataccttgggcttctactatattacaaatatggtgaaaattgaagtcatgacttatttgaacctcttttttaatg-aaagaacagGTCCAGGATGTGGAAGGCGTTGAACTATGTGGAACCCTGAAGAATGTTGTGGCCATTGCAGCAG
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-tcccgacagaatgttatggtcatgactcatgcgtacttttaaatttgtaaaacagagatactatttgagcttatgatttttgtgtttatgtaattaatagGTTCAGGATGTTGAAGGAGTTGAACTGTGTGGAACTTTGAAAAATGTTGTGGCCATAGCAGCAG
upper sequence: Vv14s0219g00280.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA19G07410.1 (Glycine max), 3'ss of exon 5
---agcattactacaactaataccttgggcttctactatattacaaatatggtgaaaattgaagtcatgac-ttatttgaacctcttttttaatgaaagaacagGTCCAGGATGTGGAAGGCGTTGAACTATGTGGAACCCTGAAGAATGTTGTGGCCATTGCAGCAG
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aaaatcttgattttgaatgaaactgaggaattttctc---ttaaatgtaatcagaatgttatggttatgatattatttgagcttatgattatgt-aattaatagGTTCAGGATGTTGAAGGAGTCGAACTGTGTGGAACTTTGAAAAATGTTGTGGCCATAGCGGCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atggtgaaaattgaagtcatgacttatttgaacctcttttttaatgaaagaacagGTCCAGGATGTGGAAGGCGTTGAACTATGTGGAACCCTGAAGAATGTTGTGGCCATTGCAGCAG
ttttaat putative branch site (score: 3)
ttttttaatgaaagaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agcattactacaactaataccttgggcttctactatattacaaatatggtgaaaattgaagtcatgacttatttgaacctcttttttaatgaaagaacagGTCCAGGATGTGGAAGGCGTTGAACTATGTGGAACCCTGAAGAATGTTGTGGCCATTGCAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - caactaa
- - - - - - - - -taccttg
- - - - - - - - - - - - - cttctac
- - - - - - - - - - - - - - - - - - - -acaaata
- - - - - - - - - - - - - - - - - - - - - - - - - gaaaatt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tcatgac