Sequence
atgc intronic sequence ATGC exonic sequence...tttgcaggtagaagaaaggaaacttctgttatgttgtttcagttcttgtttatatttcatgctccttttttcattctatccctttgataccttttttcagATAGAAGAGAAGGAGGAGTCTGTTTGGGCATCTGCTCTGAGCTGTCTGCTTTATTTTGTTTGTGATAGAGGCAAAATCTGCAGGAACCGATTAAAATGTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0019g00680.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA18G52540.1 (Glycine max), 3'ss of exon 6
tttgcaggtagaagaaaggaaacttctgttatgttgtttcagttcttgtttatatttcatgctccttt---tttcattctatccctttgataccttttttcagATAGAAGAGAAGGAGGAGTCTGTTTGGGCATCTGCTCTGAGCTGTCTGCTTTATTTTGTTTGTGATAGAGGCAAAATCTGCAGGAACCGATTAAAATGTC
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-ttat-gttatctgtatgtctacttttctgtttttcaaaca-taatggtttaaacatgctgctgtcataacttaaactttatgcgatcaattgctttatacagTCTGAAGAAAAGGATGAATCTGTTTGGGCATCTGCTCTCAGCTGTTTGCTGTATTTTGTCTGTGATAGAGGGAAGATCAAGAGAAACCGTTTGCGTGGTC
upper sequence: Vv13s0019g00680.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA02G10370.1 (Glycine max), 3'ss of exon 9
tttgcaggtagaagaaaggaaacttctgttatgttgtttcagtt-cttgtttatatttcatgctccttttttcattctatccct-ttgataccttttttcagATAGAAGAGAAGGAGGAGTCTGTTTGGGCATCTGCTCTGAGCTGTCTGCTTTATTTTGTTTGTGATAGAGGCAAAATCTGCAGGAACCGATTAAAATGTC
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-ctgtctgtatactttttctgttttctgtttttcaaaaataatggtttaatcatgctgt-tgtcataacttaaaatttatgctgattaattgttttatacagTCTGAAGAAAAGGATGAATCTGTTTGGGCATCTGCTCTCAGCTGTTTGCTGTATTTCGTCTGTGATAGAGGAAAGATCAAGAGAAACCGTTTGCATGGTC
upper sequence: Vv13s0019g00680.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA20G23240.1 (Glycine max), 3'ss of exon 12
tttgcaggtagaagaaaggaaacttctgttatgttgtttcagttcttgtttatatttcatgctcctttttt--cattctatccct-ttgataccttttttcagATAGAAGAGAAGGAGGAGTCTGTTTGGGCATCTGCTCTGAGCTGTCTGCTTTATTTTGTTTGTGATAGAGGCAAAATCTGCAGGAACCGATTAAAATGTC
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tttttatttattgtatctttagtgtag---aaattcttacaacaatggtctaatcatgatgttctcaacctaacattttatgcttattaattgttttatacagACTGAAGAAAAGGAGGAATCTGTCTGGGCATCTGCACTCAGTTGTTTACTTTATTTTGTCTGTGATAATGGAAAGATCCACAGAAACCGATTGCAAGTTC
upper sequence: Vv13s0019g00680.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT3G12590.1 (Arabidopsis thaliana), 3'ss of exon 9
tttgcaggtagaagaaaggaaacttctgttatgttgtttcagttcttg-tttatatttcatgctccttttttcattctatccctttgatacctttttt-cagATAGAAGAGAAGGAGGAGTCTGTTTGGGCATCTGCTCTGAGCTGTCTGCTTTATTTTGTTTGTGATAGAGGCAAAATCTGCAGGAACCGATTAAAATGTC
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-----------------gtgttttactctcttcttgcttctttgcttgacgtctacactagacttgtttggg-attttataccttcaaaattgtttacgtagGTTGAGGAAAAGGAAGAATGTGTTTGGGCCTCTGCCCTCAGCTGCTTGCTCTATTTTATCTGTGATAGAGGCAAAATACGGAGAAACCAGCTAAATGGTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgtttatatttcatgctccttttttcattctatccctttgataccttttttcagATAGAAGAGAAGGAGGAGTCTGTTTGGGCATCTGCTCTGAGCTGTCTGCTTTATTTTGTTTGTGATAGAGGCAAAATCTGCAGGAACCGATTAAAATGTC
ctttgat putative branch site (score: 5)
ctccttttttcattct CT-rich tract
ttttttcattctat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttgcaggtagaagaaaggaaacttctgttatgttgtttcagttcttgtttatatttcatgctccttttttcattctatccctttgataccttttttcagATAGAAGAGAAGGAGGAGTCTGTTTGGGCATCTGCTCTGAGCTGTCTGCTTTATTTTGTTTGTGATAGAGGCAAAATCTGCAGGAACCGATTAAAATGTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- -gcaggta
- - - - - gaagaaa
- - - - - - - - - - - cttctgt