Sequence
atgc intronic sequence ATGC exonic sequencegtacaccattttattgttgttatttatttattaaaaataaaaaggtaaatgtgatttttctaaggactatatatgagcttaaaagtcaattaattgaacagGTAGGGGGGTGGACAGAGGTGTATGAAGGGCTAACCTTTGCCACTGTGAGAGGTGCCGGGCATGAGGTTCCTCTGTTTCAGCCGATGCGAGCTTTCCTTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0037g00320.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os02g55130.1 (Oryza sativa), 3'ss of exon 8
---gtacaccattttattgttgttatttatttattaaaaataaaaaggtaaatgtgatttttctaaggactatatatgagcttaaaagt----caattaattgaacagGTAGGGGGGTGGACAGAGGTGTATGAAGGGCTAACCTTTGCCACTGTGAGAGGTGCCGGGCATGAGGTTCCTCTGTTTCAGCCGATGCGAGCTTTCCTTC
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gtagtgaacaatctc--cattgctgtttgtcagatgcagtttaagcag-aaatcttgtcactttaaagtctgtaacttcatctgcaaatggtgcatctgtgtgtgcagGTTGGAGGATGGTCTGAGGTGTATGAAGGGCTCACATTTGCGTCAGTGAGAGGTGCTGGGCATGAGGTGCCACTGTTTCAGCCAAGGAGAGCATTCAGGA
upper sequence: Vv11s0037g00320.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA17G08090.1 (Glycine max), 3'ss of exon 10
gtacaccattttattgttgttatttatttattaaaaataaaaaggtaa-atgtgatttttctaaggactatatat--gagcttaaaagtcaattaattgaac-agGTAGGGGGGTGGACAGAGGTGTATGAAGGGCTAACCTTTGCCACTGTGAGAGGTGCCGGGCATGAGGTTCCTCTGTTTCAGCCGATGCGAGCTTTCCTTC
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----------gtattaat-ttattaaatt-tgaaagccatatatataacatattacatgtaccaatatttcacactgaggtttatgtatcttgtggttactttagGTTGGTGGATGGACAGAGGTGTATGATGGACTAACTTTTGCAACAGTAAGAGGAGCTGGCCATGAAGTACCTTTATTTCAGCCAAAGCGAGCTTACATTC
upper sequence: Vv11s0037g00320.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA02G36600.1 (Glycine max), 3'ss of exon 8
gtacaccattttattgttgttatttatttattaaaaataaaaaggtaaatgtgatttttctaaggactatatatgagcttaaaagtcaattaattgaacagGTAGGGGGGTGGACAGAGGTGTATGAAGGGCTAACCTTTGCCACTGTGAGAGGTGCCGGGCATGAGGTTCCTCTGTTTCAGCCGATGCGAGCTTTCCTTC
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-------------------gtattaatttattaa---ttaaatttgaaacccatttcacactgaggct---tatgtgttttgtggttactt-------tagGTTGGTGGATGGACAGAGGTGTATGATGGCCTAACTTTTGCAACAGTAAGAGGAGCTGGCCATGAAGTACCTTTATTTCAGCCAAAGCGAGCTTACATTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaatgtgatttttctaaggactatatatgagcttaaaagtcaattaattgaacagGTAGGGGGGTGGACAGAGGTGTATGAAGGGCTAACCTTTGCCACTGTGAGAGGTGCCGGGCATGAGGTTCCTCTGTTTCAGCCGATGCGAGCTTTCCTTC
aattaat putative branch site (score: 3)
ttaaaagtcaattaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacaccattttattgttgttatttatttattaaaaataaaaaggtaaatgtgatttttctaaggactatatatgagcttaaaagtcaattaattgaacagGTAGGGGGGTGGACAGAGGTGTATGAAGGGCTAACCTTTGCCACTGTGAGAGGTGCCGGGCATGAGGTTCCTCTGTTTCAGCCGATGCGAGCTTTCCTTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT