Sequence
atgc intronic sequence ATGC exonic sequence...tatgctgtattgtaaaaaattaactgaaaactgcaaagtaatattggttgtttatttccattcatttaatactgaaatttggcattcgatgattttacagGTGGATCTCTACCTGCTGCCCCAGGCAGCATTCCCCACAGGAGGATTATACTTCAAGAACAAAACATGGGTGCAGGAAACCAAGGGAATGAATGTTATCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0046g01630.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA08G09360.1 (Glycine max), 3'ss of exon 3
---tatgctgtattgtaaaaaattaactgaaaactgcaaagt----aatattggttgtttatttccattcatttaatactgaaatttggcattcgatgattttacagGTGGATCTCTACCTGCTGCCCCAGGCAGCATTCCCCACAGGAGGATTATACTTCAAGAACAAAACATGGGTGCAGGAAACCAAGGGAATGAATGTTATCA
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cactaagaaggggttggtgggtttattttatttttaaaacatctaaaatgcagatatatcatatatattgttct--ttttatgattactttttccat-----tgcagGTGGATTTGTACCTGCTTCCACAGGCAGCATTCCCTACAGGCGGATTATATTTCAAGAACAAGGCATGGGTTAAGGAAACTAAAGGAATGCATGTTATCA
upper sequence: Vv15s0046g01630.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT4G01220.1 (Arabidopsis thaliana), 3'ss of exon 3
---tatgctgtattgtaaaaaattaactgaaaactgcaaagtaatattggttgtttatttccattcatttaatactgaaatttggcattcgatgattttacagGTGGATCTCTACCTGCTGCCCCAGGCAGCATTCCCCACAGGAGGATTATACTTCAAGAACAAAACATGGGTGCAGGAAACCAAGGGAATGAATGTTATCA
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tttagtactcactcctacgaatgttgtttcaattcgagaggtaat-ttgatt--tggtttgaattcattcttcaactctttttgtattatctctgttctacagGTGGATATGTACTTGCTTTCGCAGGCAGCTTTCCCAACAGGAGGATTGTATTTCAAGAACAAAACATGGGTTAAAGAAACAAAGGGAAAACATGCGATAA
upper sequence: Vv15s0046g01630.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT4G01770.1 (Arabidopsis thaliana), 3'ss of exon 3
------------------tatgctgtattg-taaaaaattaactgaaaactgcaaagtaatattggttgtttatttccattcatt--taatactga--aatttggcattcgatgattttacagGTGGATCTCTACCTGCTGCCCCAGGCAGCATTCCCCACAGGAGGATTATACTTCAAGAACAAAACATGGGTGCAGGAAACCAAGGGAATGAATGTTATCA
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gtatgtttttgtttccttcatgttctatttctactttatctacttattaatgttggat--ttatggtttttcttttagtctctttggtaactttgacttgttttgtgatcttttgttctgcagGTGGATCTCTACTTGCTTTCTCAAGTAGCTTTCCCAACAGGAGGATTGTACTTCAAGAACGAGGCATGGGTTCAAGAGACAAAGGGGAAACATGTCATAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggttgtttatttccattcatttaatactgaaatttggcattcgatgattttacagGTGGATCTCTACCTGCTGCCCCAGGCAGCATTCCCCACAGGAGGATTATACTTCAAGAACAAAACATGGGTGCAGGAAACCAAGGGAATGAATGTTATCA
atttaat putative branch site (score: 4)
tttatttccattcatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tatgctgtattgtaaaaaattaactgaaaactgcaaagtaatattggttgtttatttccattcatttaatactgaaatttggcattcgatgattttacagGTGGATCTCTACCTGCTGCCCCAGGCAGCATTCCCCACAGGAGGATTATACTTCAAGAACAAAACATGGGTGCAGGAAACCAAGGGAATGAATGTTATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
tatgctg
- - - - - - -aaaaaat
- - - - - - - - - - - - tgaaaac
- - - - - - - - - - - - - - - - - aaagtaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcattcg