Sequence
atgc intronic sequence ATGC exonic sequencegtatcttattgtttgtttttcagttatgtttttggagaacattttaaagatgaatttaggatcgacttcagaagtatatgccacatatttaaagattgttcaatggtcttatctaatcaaattgtggtcatgcctctaattagTCCAGGTATCCTGATGGTATACCTCTAGTTACCATATTTGTTCATCCATCAATGATTGAGATGTTGGATACTTCTGCTGAGGATGCTATTGAACATGGTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g03970.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA11G15470.1 (Glycine max), 3'ss of exon 5
gtatctta-ttgtttgtttttcagttatgtttttggagaacattttaaagatgaatttaggatcgacttcagaagtatatgccacatatttaaagattgttcaatggtcttatctaatcaaattgtggt---catgcctctaattagTCCAGGTATCCTGATGGTATACCTCTAGTTACCATATTTGTTCATCCATCAATGATTGAGATGTTGGATACTTCTGCTGAGGATGCTATTGAACATGGTA
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gtagctaaattactcctatcctgattctttttctaaataataactattagg---atcatagatatatgt--gaaataaatactttgtact----acttgtttccctagcttagttaatgaagcctaagtttgcgcaatccaatttagTCCAGATATCCTGAAGGCAAACCTCTAGTTTCAACATTTGTTCATCCATCTATGATTGAGATGCTAGACGCTTCTACTGAGGATGCTCTTGACCGTGGTA
upper sequence: Vv06s0004g03970.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA12G07980.1 (Glycine max), 3'ss of exon 5
gtatctta-ttgtttgtttttcagttatgtttttggagaacattttaaagatgaatttaggatcgacttcagaagtatatgccacatatttaaagattgttcaatggtcttatctaatcaaattgtggt---catgcctctaattagTCCAGGTATCCTGATGGTATACCTCTAGTTACCATATTTGTTCATCCATCAATGATTGAGATGTTGGATACTTCTGCTGAGGATGCTATTGAACATGGTA
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gtagctaaattgctcctatgttgattctttttctaaataataactattagg---atcatagatatatgt--gaaatgaatactttgtact----acttgtttccctagcttagttaatgaagcctaagtttgcgcaatccaatttagTCCAGATATCCTGAAGGCAAGCCGCTAGTTACAACATTTGTTCATTCATCGATGATTGAGATGGTAGATGCTTCTACTGAGGATGCTCTTGACCGTGGTA
upper sequence: Vv06s0004g03970.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT3G46220.3 (Arabidopsis thaliana), 3'ss of exon 4
gtatcttattgt-ttgtttttcagttatgtttttggagaacattttaaagatgaatttaggatcgacttcagaagtatatgccacatatttaaagattgttcaatggtcttatctaatcaaattgtggtcatgcctctaattagTCCAGGTATCCTGATGGTATACCTCTAGTTACCATATTTGTTCATCCATCAATGATTGAGATGTTGGATACTTCTGCTGAGGATGCTATTGAACATGGTA
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gtattgtatcatgttaatttagcgtcatttatctgtag--tttgtgaaatctaagttatggaataatagccagaatgtgtgttatgtt------ggctctttcactttcttctcattataagttgtgttttgtgacatgtatagTCTAGATACCCAGATGGCACACCTTTAGCTGCTGTATTTATTCATTCCTCAATGATTGAGATGCTGGATTCTGCAACTGAGGATGCTATTGAACAAAACA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttaaagattgttcaatggtcttatctaatcaaattgtggtcatgcctctaattagTCCAGGTATCCTGATGGTATACCTCTAGTTACCATATTTGTTCATCCATCAATGATTGAGATGTTGGATACTTCTGCTGAGGATGCTATTGAACATGGTA
atctaat putative branch site (score: 3)
tgcctct putative PPT
ttatctaatcaaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatcttattgtttgtttttcagttatgtttttggagaacattttaaagatgaatttaggatcgacttcagaagtatatgccacatatttaaagattgttcaatggtcttatctaatcaaattgtggtcatgcctctaattagTCCAGGTATCCTGATGGTATACCTCTAGTTACCATATTTGTTCATCCATCAATGATTGAGATGTTGGATACTTCTGCTGAGGATGCTATTGAACATGGTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG