Sequence
atgc intronic sequence ATGC exonic sequence...taacacataagcatagctaatagcccagacaattaacatctaacaggcccatatgtagatatattctaatacgggctctaaatcttaatgctcactgcagGAGATGACTGTGTTTCTATACAAACTGGATGCTCAAATGTATACATACACAATGTGAACTGTGGGCCAGGACATGGGATCAGTATAGGAGGACTTGGAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0127g00400.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os05g50260.1 (Oryza sativa), 3'ss of exon 3
taacacataagcatagctaatagcccagacaattaacatctaacaggcccatatgtagatatattctaatacgggctctaaatcttaatgctcac--tgcagGAGATGACTGTGTTTCTATACAAACTGGATGCTCAAATGTATACATACACAATGTGAACTGTGGGCCAGGACATGGGATCAGTATAGGAGGACTTGGAAG
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--ttcagtgctcacttgtagaaaccgacaggattcaggactaagggaaagctaaaaacactagtacaagtatctgaagtaatatttgctctctgtgatgcagGCGATGATTGTGTTTCCATCCAGACAGGCTGCAGTGACATAAACATACATAATGTGAACTGTGGACCAGGGCATGGGATCAGCATTGGTGGTCTAGGAAG
upper sequence: Vv01s0127g00400.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA08G39340.2 (Glycine max), 3'ss of exon 4
---taacacataagcatagctaatagcccagacaattaacatctaacaggcccatatgtagatatattctaatacgggctctaaatcttaatgctcactgcagGAGATGACTGTGTTTCTATACAAACTGGATGCTCAAATGTATACATACACAATGTGAACTGTGGGCCAGGACATGGGATCAGTATAGGAGGACTTGGAAG
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tgcaaatggacaaaaaattaaagtaaaacacatgatgtagactta-ctgacataaatg-gtccaagttggctcaatgtatttgaatttcaattatt-ttgcagGAGATGACTGTATTTCGATACAAACTGGATGCTCGAACGTATACGTACACAATGTCAACTGTGGACCAGGGCATGGAATCAGCATTGGAAGTCTAGGAAA
upper sequence: Vv01s0127g00400.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA18G19670.1 (Glycine max), 3'ss of exon 5
---taacacataagcatagctaatagcccagacaattaacatctaacaggcccatatg--tagatatattctaatacgggctctaaatcttaatgctcactgcagGAGATGACTGTGTTTCTATACAAACTGGATGCTCAAATGTATACATACACAATGTGAACTGTGGGCCAGGACATGGGATCAGTATAGGAGGACTTGGAAG
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tgcaaatggacaaaaaattaaagtaaaacacatgatgtagactta-ctgacataaatggtccaagttggctcaatata---tttaaatttcaattatt-ttgcagGAGATGACTGTATTTCGATACAAACTGGATGCTCGAACATATATGTACACAATGTCAACTGTGGACCAGGGCATGGAATCAGCATTGGAAGTCTAGGAAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggcccatatgtagatatattctaatacgggctctaaatcttaatgctcactgcagGAGATGACTGTGTTTCTATACAAACTGGATGCTCAAATGTATACATACACAATGTGAACTGTGGGCCAGGACATGGGATCAGTATAGGAGGACTTGGAAG
tgctcac putative branch site (score: 2)
atatgtagatatattc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taacacataagcatagctaatagcccagacaattaacatctaacaggcccatatgtagatatattctaatacgggctctaaatcttaatgctcactgcagGAGATGACTGTGTTTCTATACAAACTGGATGCTCAAATGTATACATACACAATGTGAACTGTGGGCCAGGACATGGGATCAGTATAGGAGGACTTGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
taacaca
- - - - - -catagct
- - - - - - - - - - - -cccagac
- - - - - - - - - - - - - - - - - - - - - - aggccca