Sequence
atgc intronic sequence ATGC exonic sequence...ttgtctattttttattatttgtgaattgcccacccgtgaactgctacttttgtttcttaaaagttatacttttgatgtttatgtaccttgtgtacattagGAATGCTTACAATATGGTGCTGCACAAATTTGGAGAGAAACTCTACTCTGGACTAGTTACAACTATGACTCATCATTTGGAAGTTATATCAAAATCGATT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0108g00490.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: PP1S311_38V6.1 (Physcomitrella patens), 3'ss of exon 1
-ttgtctattttttattatttgtgaattgcccacccgtgaac-tgctacttttgtttcttaaaagttatacttttgatgtttatgtaccttgtgtacattagGAATGCTTACAATATGGTGCTGCACAAATTTGGAGAGAAACTCTACTCTGGACTAGTTACAACTATGACTCATCATTTGGAAGTTATATCAAAATCGATT
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ttggataatcatctgttaggacctagtt--ctactattaaatattctatgttaaactaatttagtaaatgttgatcatgctttggtgaatcgccatgtttagGAACGCGTACAACATGGTGCTTCACAAATACGGAGAGAAACTCTATTCAGGAGTTGTTCAAACAATGACGCAGCATTTGCGGGAGATAGCAAAAATAATC
upper sequence: Vv14s0108g00490.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: PP1S31_336V6.1 (Physcomitrella patens), 3'ss of exon 2
---ttgtctattttttattatttgtgaattgcccacccgtgaactgctacttttgtttcttaaaagttatacttttgatgtttatgtaccttgtgtacattagGAATGCTTACAATATGGTGCTGCACAAATTTGGAGAGAAACTCTACTCTGGACTAGTTACAACTATGACTCATCATTTGGAAGTTATATCAAAATCGATT
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catttggtgatgatctatgaa--attaattgtatatattcgatacttcacgtgactaatttagta-tcccatcaatcatgaattgggatttcaaaatgttcagGAATGCGTACAACATGGTGCTCCACAAGTATGGAGAGAAACTCTACTCAGGAGTTGTGACGACAATGACGCAGCATTTGCGGGAGATAGCTCGAATTGTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acttttgtttcttaaaagttatacttttgatgtttatgtaccttgtgtacattagGAATGCTTACAATATGGTGCTGCACAAATTTGGAGAGAAACTCTACTCTGGACTAGTTACAACTATGACTCATCATTTGGAAGTTATATCAAAATCGATT
ttttgat putative branch site (score: 4)
tttcttaaaagttata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgtctattttttattatttgtgaattgcccacccgtgaactgctacttttgtttcttaaaagttatacttttgatgtttatgtaccttgtgtacattagGAATGCTTACAATATGGTGCTGCACAAATTTGGAGAGAAACTCTACTCTGGACTAGTTACAACTATGACTCATCATTTGGAAGTTATATCAAAATCGATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - cccaccc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -taccttg