Sequence
atgc intronic sequence ATGC exonic sequence...cccacgtatacactgagattgaaaattacaatttaaaaatatttaattttgagttaaatcatgtactcattgtcatatttaaatctctctccacatgtagGAGTTTGATAAGGTGTATGGGCCGGCCTGGCATTGCATCGTGGGCTCAAGTTTTGGCTCGTTCGTGACCCATTCCACGGGAGGTTTCCTTTACTTTTCAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0016g05000.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA17G12490.1 (Glycine max), 3'ss of exon 2
cccacgtatacactgagattgaaaattacaatttaaaaatatttaattttgagttaaatcatgtactcat-tgtcatat-ttaaatctctctccacatgtagGAGTTTGATAAGGTGTATGGGCCGGCCTGGCATTGCATCGTGGGCTCAAGTTTTGGCTCGTTCGTGACCCATTCCACGGGAGGTTTCCTTTACTTTTCAA
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-ctagatctataa-aatatagtgcttctttcttctactttgtttaacagttgataaaattatttatttatctacgatgtattcctggtatgttcatgtgcagGAATTTGACAAAGCGTATGGTCCGGTCTGGCATTGCATTGTAGGCTCAAATTTTGGTTCATTTGTGACACATTCAACGGGGTGTTTTCTTTATTTTTCAA
upper sequence: Vv11s0016g05000.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT5G20110.1 (Arabidopsis thaliana), 3'ss of exon 1
cccacgtatacactgagattgaaaattacaatttaaaaatatttaattttgagtt-aaatcatgtactcattgtcatat---ttaaatctc---tctccacatgtagGAGTTTGATAAGGTGTATGGGCCGGCCTGGCATTGCATCGTGGGCTCAAGTTTTGGCTCGTTCGTGACCCATTCCACGGGAGGTTTCCTTTACTTTTCAA
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---ttattgactataagatcttttgttgtaa----aaaggatcaaattttcaatagaaaatgtttatctattttgatgtaagtgagatatgaaatttttttatgcagGAGTTTGACAAAGGGTATGGACCAGCATGGCATTGCATAGTGGGATCAAGTTTCGGGTCGTTTGTGACACATTCGACAGGTTGTTTTATTTATTTCTCAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attttgagttaaatcatgtactcattgtcatatttaaatctctctccacatgtagGAGTTTGATAAGGTGTATGGGCCGGCCTGGCATTGCATCGTGGGCTCAAGTTTTGGCTCGTTCGTGACCCATTCCACGGGAGGTTTCCTTTACTTTTCAA
atttaat putative branch site (score: 4)
tctctctccac putative PPT
attgtcatatttaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cccacgtatacactgagattgaaaattacaatttaaaaatatttaattttgagttaaatcatgtactcattgtcatatttaaatctctctccacatgtagGAGTTTGATAAGGTGTATGGGCCGGCCTGGCATTGCATCGTGGGCTCAAGTTTTGGCTCGTTCGTGACCCATTCCACGGGAGGTTTCCTTTACTTTTCAA
cccacgt
- - - - - - - - - - -aaaatta
- - - - - - - - - - - - - - - - - aaaaata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -catgtac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cattgtc