Sequence
atgc intronic sequence ATGC exonic sequencegtgagtacaatgctttagtgtttctttgcttcatgatggcaatggggctgtgcaaggtctctgaaatctgttactttgtcgctctcgttattgttccaaattaatttttgctctgcactctgcttgcaatactaatcaatggctgcataatccagattctggtactaacagtttttctcatgcagGATTTCTATTCTGTTCTTGGAGTGTCTAAAAATGCTAGCAAATCTGAAATTAAAAGCG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0324g00040.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA05G31080.1 (Glycine max), 3'ss of exon 3
gtgagtacaatgctttagtgtttctttgct-tcatgatggcaatggggctgtgcaaggtctctgaaatctgttactttgtcgctctcgttattgttccaaattaatttttgctctgcactctgcttgcaatactaatcaatggctgcataatccagattctggtactaacagtttttctcatgcagGATTTCTATTCTGTTCTTGGAGTGTCTAAAAATGCTAGCAAATCTGAAATTAAAAGCG
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gtaagtttaaaat----gcactcttcagcagtgatgagttccttttgtttgcgt---gtgttttaaatatatgattttact--ttgtgaaaggatgcctcattgcctcttatttcaa---ctgtataaagcccatgtgaattattcaatatattttactgaatatcctttatttgtcaacatgcagGATTATTATTCTGTCCTTGGGGTTTCAAGAAATGCTAGTAAATCTGAAATTAAGAGCG
upper sequence: Vv00s0324g00040.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA08G14290.1 (Glycine max), 3'ss of exon 3
gtgagtacaatgctttagtgtttctttgcttcatgatggcaatggggctgtgca-aggtctctgaaatctgttactttgtcgctctcgttattgttccaaattaatttttgctctg-cactctgcttgcaatactaatcaatggctgcataatccagattctggtactaacagtttttctcatgcagGATTTCTATTCTGTTCTTGGAGTGTCTAAAAATGCTAGCAAATCTGAAATTAAAAGCG
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------gtaagtttaaaatgcactcttcagcagtgatga-gttccttttgtgagcatgtgttttaaatatgtga--ttgtactttgtgaaaggatgcctcattgcctcttatttcaactgtataaagcccatgtgaattattcaatatattactctgaatat----cctttatttgtcaacatgcagGATTATTATTCTGTCCTTGGGGTTTCAAGAAATGCTAGTAAATCTGAAATTAAGAGTG
upper sequence: Vv00s0324g00040.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT4G39960.1 (Arabidopsis thaliana), 3'ss of exon 3
gtgagtacaatgctttagtgtttctttgcttcatgatggcaatggggctgtgcaaggtctctgaaatctgttactttgtcgctctcgttattgttccaaattaatttttgctctgcactctgcttgcaatactaatcaatggctgcataatccagattctggtactaacagtttttctcatgcagGATTTCTATTCTGTTCTTGGAGTGTCTAAAAATGCTAGCAAATCTGAAATTAAAAGCG
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-----------------------------------------------------------------gtatgtttacatacc-ctttcttttagactttgaatgaagcttttttttttttttttttttt------------ttgctgaagagtgtgtgtatttgtgtgttcaatttc-------cagGATTTCTATTCTGTCCTTGGAGTCTCGAAAAATGCAACCAAAGCTGAGATTAAAAGCG
upper sequence: Vv00s0324g00040.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: PP1S81_162V6.1 (Physcomitrella patens), 3'ss of exon 2
gtgagtacaatgctttagtgtttctttgcttcatgatggcaatggggctgtgcaaggtctctgaaatctgttactttgtcgctctcgttattgttccaaattaatttttgctctgcactctgcttgcaatactaatcaatggctgcataatccagattctggtactaacagtttttctcatgcagGATTTCTATTCTGTTCTTGGAGTGTCTAAAAATGCTAGCAAATCTGAAATTAAAAGCG
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-------------------------------------------------------------------------------cagtgagagtagcattc--aattaactcataatgt-cgttgacataaaaatacatcacaatg-ctggagctttttcatgacgccatttgctaaatactt--ttcagGACTACTATGCGAGGCTTGGAGTAGGAAGAGATGCTAGCAAATCTGAAATTAAAAGTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.actaatcaatggctgcataatccagattctggtactaacagtttttctcatgcagGATTTCTATTCTGTTCTTGGAGTGTCTAAAAATGCTAGCAAATCTGAAATTAAAAGCG
tactaac putative branch site (score: 0)
tttttctcat putative PPT
agttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagtacaatgctttagtgtttctttgcttcatgatggcaatggggctgtgcaaggtctctgaaatctgttactttgtcgctctcgttattgttccaaattaatttttgctctgcactctgcttgcaatactaatcaatggctgcataatccagattctggtactaacagtttttctcatgcagGATTTCTATTCTGTTCTTGGAGTGTCTAAAAATGCTAGCAAATCTGAAATTAAAAGCG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG