Sequence
atgc intronic sequence ATGC exonic sequencegtgcctggtctttttgtctttctttaatacagtgatgggattctagtatgattgctaattcgattctagtatgattgctaattcaaaatcttcacctgtatacttaagtactctctctttccctctttaatttacctttatgaagGTTGATGCAACTGTTGGAAGACCTCGTGTTAACTTCAGAGAGACTGTTACGAAACGTGCTGAATTTGATTACTTACATAAGAAGCAAACTGGAGGACAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0021g02450.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: LOC_Os03g36780.1 (Oryza sativa), 3'ss of exon 13
gtgcctggtctttttgtctttctttaatacagtgatgggattctagtatgattgctaattcgattctagtatgattgctaattcaaaatcttcacctgtatacttaagtactctctctttccctctttaatttacctttatgaagGTTGATGCAACTGTTGGAAGACCTCGTGTTAACTTCAGAGAGACTGTTACGAAACGTGCTGAATTTGATTACTTACATAAGAAGCAAACTGGAGGACAAG
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------------------------------------tcaattgaaccacatccctatgttgaaagttaagatcatcttaaatcctgtatggctactgaaactttcaacaaatctaagtctccttctaca---------tgtgtagGTTGATGCAAAGGTCGGAAAACCTCGTGTGAACTTCAGGGAAACTATCACTCAGCGTGCTGAATTTGATTACTTACACAAAAAGCAATCTGGTGGTCAAG
upper sequence: Vv15s0021g02450.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GRMZM2G056393_T02 (Zea mays), 3'ss of exon 13
gtgcctggtctttttgtctttctttaatacagtgatgggattctagtatgattgctaattcgattctagtatgattgctaattcaaaatcttcacctgtatacttaagtactctctctttccctctttaatttacctttatgaagGTTGATGCAACTGTTGGAAGACCTCGTGTTAACTTCAGAGAGACTGTTACGAAACGTGCTGAATTTGATTACTTACATAAGAAGCAAACTGGAGGACAAG
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-------------------------------------gacatttgatggtgctactgatc---tccaagtgctgttatacttgtatgactgtaaattct---tttaagtgcattacattcctattatgaatgtggttacat--agGTGGATGCAAAGGTAGGAAAACCTCGTGTTAACTTCAGGGAAACAATTACCCAGCGTGCTGAATTTGATTATTTGCACAAAAAGCAATCTGGCGGTCAAG
upper sequence: Vv15s0021g02450.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA01G14800.1 (Glycine max), 3'ss of exon 8
gtgcctggtctttttgtctttctttaatacagtgatgggattctagtatgattgctaattcgattctagtatgattgctaattcaaaatcttcacctgtatacttaagtactctctctttccctctttaatttacctttatgaagGTTGATGCAACTGTTGGAAGACCTCGTGTTAACTTCAGAGAGACTGTTACGAAACGTGCTGAATTTGATTACTTACATAAGAAGCAAACTGGAGGACAAG
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------------------------------------------gtaccattttcatcctccacatgtttattttctttcttgttggaagctggccaatgtttgctt---catttggagtttcattctgttgtctttacctgttaagGTTGATGCTTCAGTTGGAAAACCCCGTGTTAACTTCAGAGAAACTGTTACTCAACGTGCTGATTTTGACTATTTGCATAAGAAGCAAAGTGGAGGACAAG
upper sequence: Vv15s0021g02450.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA11G16460.1 (Glycine max), 3'ss of exon 13
gtgcctggtctttttgtctttctttaatacagtgatgggattctagtatgattgctaattcgattctagtatgattgctaattcaaaatcttcacctgtatacttaagtactctctctttccctctttaatttacctttatgaagGTTGATGCAACTGTTGGAAGACCTCGTGTTAACTTCAGAGAGACTGTTACGAAACGTGCTGAATTTGATTACTTACATAAGAAGCAAACTGGAGGACAAG
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---------------------------------------gtacccttttcatcctccacata--tttattttctttcttgttcgaagctggccaaatgtttgctt---catctggagtttcattcttttgtctttacctgttaagGTTGATGCTTCAGTTGGAAAGCCCCGTGTTAACTTCAGAGAAACTGTTACTCAACGTGCTGATTTTGACTATTTGCATAAGAAGCAAAGTGGAGGACAAG
upper sequence: Vv15s0021g02450.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: AT1G45332.1 (Arabidopsis thaliana), 3'ss of exon 13
gtgcctggtctttttgtctttctttaatacagtgatgggattctagtatgattgctaattcgattctagtatgattgctaattcaaaatcttcacctgtatacttaagtactctctctttccctctttaattt----acctttatgaagGTTGATGCAACTGTTGGAAGACCTCGTGTTAACTTCAGAGAGACTGTTACGAAACGTGCTGAATTTGATTACTTACATAAGAAGCAAACTGGAGGACAAG
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----------------------------------------------------------------------gtacctgacttttaaaccttcacaatgttcttctcaaccaaactcttattttctacttaattttggaaatatcaaatagGTTGATGCGACTGTGGGCAAACCCCGTGTCAATTTTAGGGAGACTATTACCCAGCGCGCTGAGTTTGATTATTTACATAAGAAGCAAAGTGGAGGAGCTG
upper sequence: Vv15s0021g02450.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: AT2G45030.1 (Arabidopsis thaliana), 3'ss of exon 13
gtgcctggtctttttgtctttctttaatacagtgatgggattctagtatgattgctaattcgattctagtatgattgctaattcaaaatct-tcacctgtatacttaagtactctctctttccctctttaatttacctttatgaagGTTGATGCAACTGTTGGAAGACCTCGTGTTAACTTCAGAGAGACTGTTACGAAACGTGCTGAATTTGATTACTTACATAAGAAGCAAACTGGAGGACAAG
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---------------------------------------------------gtgcctgcctgactttaaaccttcccaatgttctcactctattgcttctcgacaaaacccttatttctgcttatttttgga--aatatcaaatagGTTGATGCGACTGTGGGCAAACCCCGTGTCAATTTTAGGGAGACTATTACTCAGCGGGCAGAGTTTGATTATTTACATAAGAAGCAAAGTGGAGGAGCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcacctgtatacttaagtactctctctttccctctttaatttacctttatgaagGTTGATGCAACTGTTGGAAGACCTCGTGTTAACTTCAGAGAGACTGTTACGAAACGTGCTGAATTTGATTACTTACATAAGAAGCAAACTGGAGGACAAG
ctttaat putative branch site (score: 4)
tactctctctttccct CT-rich tract
tttaatttacctttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgcctggtctttttgtctttctttaatacagtgatgggattctagtatgattgctaattcgattctagtatgattgctaattcaaaatcttcacctgtatacttaagtactctctctttccctctttaatttacctttatgaagGTTGATGCAACTGTTGGAAGACCTCGTGTTAACTTCAGAGAGACTGTTACGAAACGTGCTGAATTTGATTACTTACATAAGAAGCAAACTGGAGGACAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA