Sequence
atgc intronic sequence ATGC exonic sequence...aaaagggagaaatagttgagcatgtggattttgcactacatgatttgtgcttatttttctgtgccattaattcaaatgctgatgttatactttgttccagGGCTAACAAAAAAAAGATACTGGAATTTCTGATTGATGCATGGGCGAATGATCGGAGAGCTGAATGGTCAATATGGATGGTATACTCTAAGGTCGAGATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0055g00430.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA08G19570.1 (Glycine max), 3'ss of exon 8
---aaaagggagaaatagttgagcatgtggattttgcactacatgatttgtgcttatttttctgtgccattaattcaaatgctgatgttatactttgttccagGGCTAACAAAAAAAAGATACTGGAATTTCTGATTGATGCATGGGCGAATGATCGGAGAGCTGAATGGTCAATATGGATGGTATACTCTAAGGTCGAGATG
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gaaaaaagatacactcagttaaatatct---tttaatattaagccttccttcaagtcaatgacatggtttttctcttcctttttattctcatcgcttcatcagGGAAAATAAAACAAAGATACTGGAATTTCTCCGTAACTCATGGGCTAATGATCGAAGAACTGAGTGGTCAATATGGATGGTGTACTCCAAGGTTGATATG
upper sequence: Vv12s0055g00430.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA08G08190.1 (Glycine max), 3'ss of exon 9
aaaaggga-gaaatagttgagcatgtggattttgcactacatgatttgtgcttatttttctgtgccattaattcaaatgctgatgttatactttgttccagGGCTAACAAAAAAAAGATACTGGAATTTCTGATTGATGCATGGGCGAATGATCGGAGAGCTGAATGGTCAATATGGATGGTATACTCTAAGGTCGAGATG
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aactgttatgttgtaggaaaagatgcacaattcaagcataacattttagctgtacattaagtcgatatcatctctttttc-aaccttatcattttactcagGGAAAACAAAACAAAAATACTGGAATTTCTACGTAAATCCTGGGAGATTGATAGGAGAACTGAATGGTCAATATGGATGGTGTACTCAAAGGTTGCAATG
upper sequence: Vv12s0055g00430.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT1G58350.3 (Arabidopsis thaliana), 3'ss of exon 8
---------------------aaaagggagaaatagttgagcatgtggattttgcactacatgatttgtgcttatttttctgtgccattaattcaaatgctgatgttatac-tttgttccagGGCTAACAAAAAAAAGATACTGGAATTTCTGATTGATGCATGGGCGAATGATCGGAGAGCTGAATGGTCAATATGGATGGTATACTCTAAGGTCGAGATG
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gtaattcttttgtacttcaatgatctaattaagtttcagaccaagatcgtttctttatctatctactgagagactctgaaaatatcaatattctaggcatttatcgcatatgtcctttttagGGATAATCACACAAAAATACTTGAATATCTTCGTGATATCTGGACTAAAGATCGGAGAGCTGAATGGTCAATATGGATGGTGTACTCTAAGGTTGAAATG
upper sequence: Vv12s0055g00430.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT1G09980.2 (Arabidopsis thaliana), 3'ss of exon 8
aaaagggagaaatagttgagcatgtggattttgcactacatgatttgtgcttatttttctgtgccattaattcaaatgctgatgttatactttgttccagGGCTAACAAAAAAAAGATACTGGAATTTCTGATTGATGCATGGGCGAATGATCGGAGAGCTGAATGGTCAATATGGATGGTATACTCTAAGGTCGAGATG
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gtaagtttcctttggacatccatagtcaaataagcctaca-ggtttataatgtttgcgaagttatcttctgatcattgactttatttttccccttttcagGGATAATTACACAAAAATCTTGGAATATCTTCGCGATATCTGGACTAAAGATCGAAGAGCGGAATGGTCAATATGGATGGTGTACTCCAAGGTTGAAATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtgcttatttttctgtgccattaattcaaatgctgatgttatactttgttccagGGCTAACAAAAAAAAGATACTGGAATTTCTGATTGATGCATGGGCGAATGATCGGAGAGCTGAATGGTCAATATGGATGGTATACTCTAAGGTCGAGATG
tgctgat putative branch site (score: 3)
ctttgttcc putative PPT
attaattcaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaaagggagaaatagttgagcatgtggattttgcactacatgatttgtgcttatttttctgtgccattaattcaaatgctgatgttatactttgttccagGGCTAACAAAAAAAAGATACTGGAATTTCTGATTGATGCATGGGCGAATGATCGGAGAGCTGAATGGTCAATATGGATGGTATACTCTAAGGTCGAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - -ggagaaa
- - - - - - - - - - catgtgg
- - - - - - - - - - - - - - - - -cactaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccattaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - caaatgc