Sequence
atgc intronic sequence ATGC exonic sequencegtgtgtcttctggatgaactaaagctcatataagttaaatttcatttttagaagttattaattaacttcagagttctgatgttttttctgcacttacctcggtataaaaccatgatagGTCCATTATGGCTGTTTCTTCATGGAATGACAATGGGCAAAAGCAGTTTGTGCATGATCCTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0585g00030.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: LOC_Os02g58590.1 (Oryza sativa), 3'ss of exon 11
-----gtgtgtcttctggatgaactaaagctcatataagttaaatttcatttttagaagttattaattaacttcagagttctgatgttttttctgcacttacctcggtataaaaccatgatagGTCCATTATGGCTGTTTCTTCATGGAATGACAATGGGCAAAAGCAGTTTGTGCATGATCCTT
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gtatgttgtatattatatattaattatagttggaaagccaaggatttcatctgca-atgtatctaatt---------gctttgctgctattcctg---tcactgtggtattgaa--------gGACAATCATGGCCGTTTCTTCCTGGAATGACAATGGACAAAAGCAATTTGTTTACGACCCAA
upper sequence: Vv00s0585g00030.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GRMZM2G426275_T04 (Zea mays), 3'ss of exon 11
gtgtgtcttctggatgaactaaagctcatataagttaaatttcatttttagaagttattaattaacttcagagttctgatgttttt-tctgcacttacctcggt-ataaaaccatgatagGTCCATTATGGCTGTTTCTTCATGGAATGACAATGGGCAAAAGCAGTTTGTGCATGATCCTT
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-----------------------------gtatgttatgttat-tatatgctttctacatacaaatatgaggaacttgatatataaatttccttttattctaatcattgttgtacggaagGACGATTATGGCTGTTTCTTCTTGGAATGACAATGGGCAGAAGCAGTTTGTTAACGACCCAA
upper sequence: Vv00s0585g00030.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA04G00200.1 (Glycine max), 3'ss of exon 11
gtgtgtcttctggatgaactaaa-gctcatataagttaaatttcatttttagaagttattaattaacttcagagttctgatgttttttctgcacttacctcggtataaaaccatgatagGTCCATTATGGCTGTTTCTTCATGGAATGACAATGGGCAAAAGCAGTTTGTGCATGATCCTT
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gtatgtgttctagaagcgcagaatgctgaatttattttcttttgattcactg----cactagtt--ttttaagactccggaatctctgttgttaatatttc----------tattctagATCCATTATGGCTGTTTCCTCATGGAATGACAATGGACAAAAGCAGTTTGTACATGATCCAT
upper sequence: Vv00s0585g00030.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA06G00230.1 (Glycine max), 3'ss of exon 11
gtgtgtcttctggatgaactaaagctcatataagttaaatttcatttttagaagttattaattaacttcagagttctgatgttttttctgcacttacctcggta-taaaaccatgatagGTCCATTATGGCTGTTTCTTCATGGAATGACAATGGGCAAAAGCAGTTTGTGCATGATCCTT
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gtatgttttctaga---attgcaga------atgctgaattt-attttc------ttttgattcgctacactagttttttaagactttggaatctctgttgataatttttctattctagATCCATTATGGCTGTTTCCTCATGGAATGACAATGGACAAAAGCAGTTTGTACATGATCCAT
upper sequence: Vv00s0585g00030.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: AT4G38240.3 (Arabidopsis thaliana), 3'ss of exon 11
gtgtgtcttctggatgaactaaagctcatataagttaaatttcatttttagaagttattaattaacttcagagttctgatgttttttctgcacttacctcggtataaaaccatgatagGTCCATTATGGCTGTTTCTTCATGGAATGACAATGGGCAAAAGCAGTTTGTGCATGATCCTT
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gtatgttacctactgaagctaga-ctcttatagtataagtttc---cacagagtatacaaat---------gtttttattactgtttctcattcttttctggtccaaacatgtgttagAACCATTATGGCTGCTTCATCATGGAATGATAATGGACAGAAGCAGTTTGTGCATGATCCCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aacttcagagttctgatgttttttctgcacttacctcggtataaaaccatgatagGTCCATTATGGCTGTTTCTTCATGGAATGACAATGGGCAAAAGCAGTTTGTGCATGATCCTT
cacttac putative branch site (score: 2)
atgtttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgtgtcttctggatgaactaaagctcatataagttaaatttcatttttagaagttattaattaacttcagagttctgatgttttttctgcacttacctcggtataaaaccatgatagGTCCATTATGGCTGTTTCTTCATGGAATGACAATGGGCAAAAGCAGTTTGTGCATGATCCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA