Sequence
atgc intronic sequence ATGC exonic sequencegtaggtgacttaaaatgctttgcaaatagtagtcctaacttatccttgtcttatttcaatttgtgaaacttgttcttccagGACTACAATGCTAAGCTTTCTGACTTTGGACTTGCCAAAGACGGTCCAGAAGGAGATAAGACACATGTATCTACTCGTGTAATGGGCACCTATGGCTATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0108g00380.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os01g40590.1 (Oryza sativa), 3'ss of exon 4
------------gtaggtgacttaaaatgctttgcaaatagtagtcctaacttatccttgtcttatttcaatttgtgaaacttgttcttccagGACTACAATGCTAAGCTTTCTGACTTTGGACTTGCCAAAGACGGTCCAGAAGGAGATAAGACACATGTATCTACTCGTGTAATGGGCACCTATGGCTATG
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gtatgcaaccatgtttgagaatcaaaacatattagaaatgttcatt-tagattgtaacattctcat----atttcttaaatattcattttcagGACTACAATGCAAAACTCTCTGATTTTGGACTAGCTAAAGATGGCCCTGAGGGTGATAAAACACATGTATCTACTCGAGTCATGGGAACTTATGGATATG
upper sequence: Vv14s0108g00380.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA19G02730.1 (Glycine max), 3'ss of exon 3
gtaggtgacttaaaa--tgctttgcaaatagtagt----cctaacttatccttgtcttatttcaatttgtgaaact-tgttcttccagGACTACAATGCTAAGCTTTCTGACTTTGGACTTGCCAAAGACGGTCCAGAAGGAGATAAGACACATGTATCTACTCGTGTAATGGGCACCTATGGCTATG
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gtaa-taacttgaatgttccattgcttactatactaactttcaacatataaacacctttacttacctcttaatatcattctattttagGACTACAATGCAAAACTTTCTGACTTTGGGCTTGCCCAAGATGCTCCAGTGGGAGATAAAACTCATGTTTCCACTGAAGTAATGGGAACACAAGGCTATG
upper sequence: Vv14s0108g00380.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA13G05260.1 (Glycine max), 3'ss of exon 3
gtaggtgacttaaaa--tgctttgcaaatagtagtcctaacttatccttg--------tcttatttcaatttgtgaaacttgttcttccagGACTACAATGCTAAGCTTTCTGACTTTGGACTTGCCAAAGACGGTCCAGAAGGAGATAAGACACATGTATCTACTCGTGTAATGGGCACCTATGGCTATG
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gtaa-taacttgaatattgtttcattgcttactatgctaactttcaacagataaacacctttacctgcatcttaacatcattctgttttagGACTACAATGCAAAACTTTCTGACTTTGGGCTTGCGCAAGATGCTCCAGTGGGAGATAAAAGTCACGTTTCCACTGAAGTAATGGGAACACAAGGTTATG
upper sequence: Vv14s0108g00380.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: PP1S31_254V6.1 (Physcomitrella patens), 3'ss of exon 4
--------gtaggtgacttaaaat---gctttgcaaatagtagtcctaacttat--ccttgtcttatt-tcaatttgtgaaacttgttctt-----ccagGACTACAATGCTAAGCTTTCTGACTTTGGACTTGCCAAAGACGGTCCAGAAGGAGATAAGACACATGTATCTACTCGTGTAATGGGCACCTATGGCTATG
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aatattttgtacgcaatagagactttcgtttcgtatagtctgttccttgtatgggacttgatgtcatcctctgtcctcaaacctagttcttgggtgtcagGATTACACAGCTAAGCTATCTGATTTTGGCCTAGCGAAAGATGGGCCTGAAGGAGACAAAACTCACGTATCAACACGTGTCATGGGCACCTATGGCTATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tagtagtcctaacttatccttgtcttatttcaatttgtgaaacttgttcttccagGACTACAATGCTAAGCTTTCTGACTTTGGACTTGCCAAAGACGGTCCAGAAGGAGATAAGACACATGTATCTACTCGTGTAATGGGCACCTATGGCTATG
tcctaac putative branch site (score: 1)
cttgttcttcc putative PPT
tcttatttcaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaggtgacttaaaatgctttgcaaatagtagtcctaacttatccttgtcttatttcaatttgtgaaacttgttcttccagGACTACAATGCTAAGCTTTCTGACTTTGGACTTGCCAAAGACGGTCCAGAAGGAGATAAGACACATGTATCTACTCGTGTAATGGGCACCTATGGCTATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT