Sequence
atgc intronic sequence ATGC exonic sequence...acttgaatgcatgatcatgtaatatgctctcgcacagctgatatttcttcaataaatatttagtgctaaatttcttagaggcttattcatctgagtgcagAAGTGATGTCCTAATGCGAAACTTGGACAATTTGCATGCTCGTGAATTGCTTTCTAGGATTGTTATTGATGAAGCCCATTGTGTAAGTCAGTGGGGGCAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0035g00400.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G319573_T01 (Zea mays), 3'ss of exon 10
-----acttgaatgcatgatca--tgtaatatgctctcgcacagctgatatttcttcaataaatat-ttagtgctaaatttcttagaggcttattcatctgagtgcagAAGTGATGTCCTAATGCGAAACTTGGACAATTTGCATGCTCGTGAATTGCTTTCTAGGATTGTTATTGATGAAGCCCATTGTGTAAGTCAGTGGGGGCAT
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aagacatttttctatttgaatactttttttgggtataagtacaatt-acatgtgttgtatgaatatattaatgt--aaccagttag-----tattgttttgagtacagGAGTGGTGCTTTATCGAGACTATTGGACAATTTAAATTCACAAGGGCACCTTTCTAGAATTGTTATTGATGAAGCTCATTGTGTAAGCCAGTGGGGTCAT
upper sequence: Vv12s0035g00400.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA08G20070.1 (Glycine max), 3'ss of exon 13
------------acttgaa--tgcatgatcatgtaatatgctctcgcacagctgat--atttcttcaataaatatt--tagtgctaaatttcttagaggct-----tattcatctgagtgcagAAGTGATGTCCTAATGCGAAACTTGGACAATTTGCATGCTCGTGAATTGCTTTCTAGGATTGTTATTGATGAAGCCCATTGTGTAAGTCAGTGGGGGCAT
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gtgagtgccattatttatagctgttctactctttgaaacatttttacttgacatatgcattttttaacttaagaaccatagtcttctttttccataatgctattgtttttactttgactgcagAAGTGATAATCTTCTACGCCACTTGGACAATTTACATTTTCGTGAATTGCTTGCAAGGATAGTAATTGATGAGGCTCACTGTGTGAGCCAATGGGGGCAT
upper sequence: Vv12s0035g00400.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT1G60930.1 (Arabidopsis thaliana), 3'ss of exon 11
---acttgaatgcatgatcatgtaatatgctctcgcacagctgatatttcttcaataaatatttagtgctaaatttcttagaggcttattcatctgagtgcagAAGTGATGTCCTAATGCGAAACTTGGACAATTTGCATGCTCGTGAATTGCTTTCTAGGATTGTTATTGATGAAGCCCATTGTGTAAGTCAGTGGGGGCAT
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acatcttatagttctaggaatgtaa-gtattgcaattctgtcc-catcccatcattaccagtaacatcatcaagctgata-agcttctctttcttgactacagAAGTGAATCCCTTTTAAGGCACCTCGAAATCTTAAACTCCCGTAGTTTGCTTGCTCGATTTGTTATTGATGAAGCTCATTGTGTGAGTCAGTGGGGGCAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcttcaataaatatttagtgctaaatttcttagaggcttattcatctgagtgcagAAGTGATGTCCTAATGCGAAACTTGGACAATTTGCATGCTCGTGAATTGCTTTCTAGGATTGTTATTGATGAAGCCCATTGTGTAAGTCAGTGGGGGCAT
tgctaaa putative branch site (score: 2)
ttcatct putative PPT
aataaatatttagtgc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
acttgaatgcatgatcatgtaatatgctctcgcacagctgatatttcttcaataaatatttagtgctaaatttcttagaggcttattcatctgagtgcagAAGTGATGTCCTAATGCGAAACTTGGACAATTTGCATGCTCGTGAATTGCTTTCTAGGATTGTTATTGATGAAGCCCATTGTGTAAGTCAGTGGGGGCAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - gaatgca
- - - - - - - tcatgta
- - - - - - - - - - - - tgctctc
- - - - - - - - - - - - - - - - - cagctga
- - - - - - - - - - - - - - - - - - - - - - - - - aataaat