Sequence
atgc intronic sequence ATGC exonic sequence...ggctgttggaaaggttttatttttgttccttgtttgtgtaaaattctctaatgtgaaaatgaccgctgggggtttacacatttttgcattcattttgcagATATGAAACTGGAGACCATGTGGGCGTTTATGCTGAGAATTGTGATGAAACTGTTGAAGAAGCAGGAAGGTTGTTGGGTCAACCTCTAGATTTGCTTTTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g07630.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA06G10180.1 (Glycine max), 3'ss of exon 9
ggctgttggaaaggttttatttttgttccttgtttgtgtaaaattctctaa---tgtgaaaatgaccgctgggggt-ttacacatttttgcattcattttgcagATATGAAACTGGAGACCATGTGGGCGTTTATGCTGAGAATTGTGATGAAACTGTTGAAGAAGCAGGAAGGTTGTTGGGTCAACCTCTAGATTTGCTTTTT
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---gttttgtcatactttatcag-acggcaactagacatatccttccccaattatgtgatagtattcaataaatctgttgatggcttttgtctgattttctcagATATGAAACTGGAGACCATGTGGGTGTTTATGCTGATAACTGCGACGAAACTGTTGAAGAAACTGGGAAGTTGTTGGGTCAGAATTTAGATCTATTGTTT
upper sequence: Vv18s0001g07630.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA14G36070.1 (Glycine max), 3'ss of exon 9
ggctgttggaaaggttttatttttgttccttgtttgtgtaaaattctctaatgtgaaaatgaccgctgggggtttacacatttttgcatt-cattttgcagATATGAAACTGGAGACCATGTGGGCGTTTATGCTGAGAATTGTGATGAAACTGTTGAAGAAGCAGGAAGGTTGTTGGGTCAACCTCTAGATTTGCTTTTT
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-tatgttgtacaaatcattcataaggcatataagaaagtattctctttcagttgttagccattaagtaatcatgtggatggttttgtttgatctttctcagATATGAAACTGGTGACCATGTGGGTGTTTTTGCTGAAAACGGCGATGAAACTGTTGAAGAAGCTGGAAAGTTGCTGGGTCAGGATTTAGATTTGGTATTT
upper sequence: Vv18s0001g07630.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA04G10200.1 (Glycine max), 3'ss of exon 9
ggctgttggaaaggttttatttttgttccttgtttgtgtaaaattctctaat---gtgaaaatgaccgctgggggtttacacatttttgcattcattttgc--agATATGAAACTGGAGACCATGTGGGCGTTTATGCTGAGAATTGTGATGAAACTGTTGAAGAAGCAGGAAGGTTGTTGGGTCAACCTCTAGATTTGCTTTTT
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---gttttgtcatactttatca--gacggcaactagaatatccttccccaattatgtgatagtattcaataaatctgttgatggctttcatctgatttttcccagATACGAAACTGGAGACCATGTCGGTGTCTATGCTGATAACTGCAACGAAACTGTTGAAGAAGCTGGGAAGTTGTTGGGTCAGAATTTAGATCTATTGTTT
upper sequence: Vv18s0001g07630.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA02G37850.1 (Glycine max), 3'ss of exon 9
ggctgttggaaaggttttattt--ttgttccttgtttgtgtaaaattctctaatgtgaa--aatgaccgctgggggtttacacatttttgcattcattttgcagATATGAAACTGGAGACCATGTGGGCGTTTATGCTGAGAATTGTGATGAAACTGTTGAAGAAGCAGGAAGGTTGTTGGGTCAACCTCTAGATTTGCTTTTT
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-tcattcataatgcatataagaaagtattctctgtcagtttcaactt-tcaactgttaaccattaagtaatcagg-tggatggttttgtttgatctttct-cagATATGAAACTGCTGACAATGTGGGTGTTTTTGCTGAAAACGATGATGAAGCTGTTGAAGAAGCTGGAAAGTTGCTGGGTCAGGATTTGGATTTGGTGTTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctctaatgtgaaaatgaccgctgggggtttacacatttttgcattcattttgcagATATGAAACTGGAGACCATGTGGGCGTTTATGCTGAGAATTGTGATGAAACTGTTGAAGAAGCAGGAAGGTTGTTGGGTCAACCTCTAGATTTGCTTTTT
ctctaat putative branch site (score: 3)
ttcatttt putative PPT
attcatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggctgttggaaaggttttatttttgttccttgtttgtgtaaaattctctaatgtgaaaatgaccgctgggggtttacacatttttgcattcattttgcagATATGAAACTGGAGACCATGTGGGCGTTTATGCTGAGAATTGTGATGAAACTGTTGAAGAAGCAGGAAGGTTGTTGGGTCAACCTCTAGATTTGCTTTTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- ctgttgg
- - - - - - - - - - - - -ttccttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaatga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gggggtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttttgca