Sequence
atgc intronic sequence ATGC exonic sequence...cttataaacttgtgtcattaattacgcgagtacaaaatgttataaatttgtgtaatgcttgtaatttatcaattcttgactaatatttcgactatgacagGCTTTGAGGGATTCTCTGGTCATGATGAGAGAAGAGAAAGAAAGTCTGATTTTGAAAACTCGGAAGACGAAAGGAGGACAAGAATTGGGTCTCTGAAAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv03s0038g04470.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA12G04460.1 (Glycine max), 3'ss of exon 1
cttataaacttgtgtcattaattacgcgagtacaaaatgttataaatttgtgtaatgcttgtaatttatcaattcttgactaatatttcgactatgacagGCTTTGAGGGATTCTCTGGTCATGATGAGAGAAGAGAAAGAAAGTCTGATTTTGAAAACTCGGAAGACGAAAGGAGGACAAGAATTGGGTCTCTGAAAAA
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-----------gtaacttcctcttctctctctcttagggttttagcttttttctatcttcgc--ttatgcgtttcgttttggttattt------tggcagGTTTTGAAGGTTTCTCCGGGAGTGATGAGAAGAAAGAAAGGAGATCTGATTTTGAGAACTCCGAAGATGAAAGAAGAACGAGAATTGGATCTCTGAAGAA
upper sequence: Vv03s0038g04470.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA11G12260.1 (Glycine max), 3'ss of exon 1
cttataaacttgtgtcattaattacgcgagtacaaaatgttataaatttgtgtaatgcttgtaatttatcaattcttgactaatatttcgactat---gacagGCTTTGAGGGATTCTCTGGTCATGATGAGAGAAGAGAAAGAAAGTCTGATTTTGAAAACTCGGAAGACGAAAGGAGGACAAGAATTGGGTCTCTGAAAAA
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---gtaacttcctcttctctctcacacactctctc--tttcatagggtttc--agttttttttttctcttcgcttatgcgtctcgttttggttattgtggcagGTTTCGAAGGATTCTCCGGGAGTGATGAGAAGAAGGAAAGGAGATCTGATTTTGAGAACTCCGAAGATGAAAGAAGAACGAGAATTGGATCTCTGAAGAA
upper sequence: Vv03s0038g04470.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT4G39170.2 (Arabidopsis thaliana), 3'ss of exon 1
cttataaacttgtgtcattaatta--cgcgagtacaaaatgttataaatttgtgtaa--tgcttgtaatttatcaattcttgactaatatttcgactatgacagGCTTTGAGGGATTCTCTGGTCATGATGAGAGAAGAGAAAGAAAGTCTGATTTTGAAAACTCGGAAGACGAAAGGAGGACAAGAATTGGGTCTCTGAAAAA
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----tagggttgtgctatttacaagcctcaattttgagaagttgggtcgtgatttcagctgccaatagttcagtggttgatgaaaaatgttttcttttttatagGTTTTGAGGGAATATTGAGCAGTGATGAGAAAAAGGAAAGAAAGTCTGATTTTGAGAACTCAGAAGATGAGAGGAGAACAAGAATCGGTTCTTTGAAGAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttgtgtaatgcttgtaatttatcaattcttgactaatatttcgactatgacagGCTTTGAGGGATTCTCTGGTCATGATGAGAGAAGAGAAAGAAAGTCTGATTTTGAAAACTCGGAAGACGAAAGGAGGACAAGAATTGGGTCTCTGAAAAA
gactaat putative branch site (score: 2)
taatttatcaattctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cttataaacttgtgtcattaattacgcgagtacaaaatgttataaatttgtgtaatgcttgtaatttatcaattcttgactaatatttcgactatgacagGCTTTGAGGGATTCTCTGGTCATGATGAGAGAAGAGAAAGAAAGTCTGATTTTGAAAACTCGGAAGACGAAAGGAGGACAAGAATTGGGTCTCTGAAAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - -acaaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - -tgcttgt