Sequence
atgc intronic sequence ATGC exonic sequence...attgcagaagccattagcatttatcttctgtaaaatacatagttaagcttcttcactttgtccttcttttatctgtttctcacattttgtaatttgacagGTGAGGGAGCCACTTCCTTTGATTGTACATCATCTCCCAATAGCAGTGACCTTTGCAATTATTGGGAATGAGAACATTATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0072g00880.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT3G12990.1 (Arabidopsis thaliana), 3'ss of exon 4
attgcagaagccattagcatttatcttctgtaaaatacatagttaagcttcttcactttg-----------tccttcttttatctgtttctcac---attttgtaa-tttgacagGTGAGGGAGCCACTTCCTTTGATTGTACATCATCTCCCAATAGCAGTGACCTTTGCAATTATTGGGAATGAGAACATTATG
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-----gttagtaattcatattttttttttttcagtttagttgatgaacttaataactagagagaaggaagttctcaacttcaactgttttgtactatatttggtttcttttacagGAAAGGGAACCACTTCCTTTGATAATACATCATCTCCCAATAGCCTTCACGTTTGGATTTTTTAATAAAGGCAGTATCTTG
upper sequence: Vv18s0072g00880.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT3G60500.2 (Arabidopsis thaliana), 3'ss of exon 5
attg--cagaagccattagcatttatcttctgtaaaatacatagttaagcttcttcactttgtccttcttttatctgtttctcacatttt---gtaatttgacagGTGAGGGAGCCACTTCCTTTGATTGTACATCATCTCCCAATAGCAGTGACCTTTGCAATTATTGGGAATGAGAACATTATG
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gttagtcatatgttttcggtttagagaaact-tgtaagaatttgttaagtggagaagacagttcttaactttaactgtttgttctatctttactttcttttgcagGAAAGGGAACCACTTCCATTGATAATACATCATCTCCCAATAGCCTTCACGTTTGGATTTTTTAATAAAGGCAACATTGTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agcttcttcactttgtccttcttttatctgtttctcacattttgtaatttgacagGTGAGGGAGCCACTTCCTTTGATTGTACATCATCTCCCAATAGCAGTGACCTTTGCAATTATTGGGAATGAGAACATTATG
ttctcac putative branch site (score: 2)
acattttgtaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
attgcagaagccattagcatttatcttctgtaaaatacatagttaagcttcttcactttgtccttcttttatctgtttctcacattttgtaatttgacagGTGAGGGAGCCACTTCCTTTGATTGTACATCATCTCCCAATAGCAGTGACCTTTGCAATTATTGGGAATGAGAACATTATG
- - - gaagcca
- - - - - - - - - - - - cttctgt
- - - - - - - - - - - - - - - -aaaatac