Sequence
atgc intronic sequence ATGC exonic sequencegtagggtgatgtctaatatatatatatatatatatatatctgtttttcatgttaacttcaggcttttcattgttatattcaaaatattattgcagGGCCTATGGAAGTGGAAAGGAAGATAGTCCTCTCTGTGATGTGCCTGGGTTTGAAAACTGCAGGATGAAGTTGCTACGACATGTGTCCTTTGTAGATTGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0042g01220.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os12g41400.1 (Oryza sativa), 3'ss of exon 4
-gtagggtgatgtctaa-tatatatatata-tatatatatatctgttt--ttcatgttaacttcaggcttttcattgttatattcaaaatattat-tgcagGGCCTATGGAAGTGGAAAGGAAGATAGTCCTCTCTGTGATGTGCCTGGGTTTGAAAACTGCAGGATGAAGTTGCTACGACATGTGTCCTTTGTAGATTGC
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aattatctgccattcacctacttaggactgctgctttgatgtcaagctaatgcatgtgagctctgcactatatgttgactttttttcc-tgttatataaagGGCTTATGGAAGTGGAAAAGAAGATAGCCCTCACTGTGATGTGCCTGGGTTTGAAAACACTAGGATGAAGCTACTGAGACATGTTTCTTTTGTTGATTGT
upper sequence: Vv10s0042g01220.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os12g07740.1 (Oryza sativa), 3'ss of exon 4
gtagggtgatgtctaatatatatatatatatatatatatct-gtttttcatgttaacttcaggcttttcattgttatattcaaaatattattgca----gGGCCTATGGAAGTGGAAAGGAAGATAGTCCTCTCTGTGATGTGCCTGGGTTTGAAAACTGCAGGATGAAGTTGCTACGACATGTGTCCTTTGTAGATTGC
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gccattcacctcttaggattattgctttggtgtgaagctcttatacaatatgtgtgctcttgttcactctttgttgactttagtttcctattacataaagGGCTTATGGAAGCGGAAAAGAAGATAGCCCTCACTGTGATGTGCCTGGGTTTGAAAACACTAGGATGAAGCTACTGAGACATGTTTCTTTTGTTGATTGT
upper sequence: Vv10s0042g01220.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G117900_T02 (Zea mays), 3'ss of exon 4
---gtagggt--gatg-tctaatatatatatatatata-tatatatctgtttttcatgttaacttcaggcttttcattgttatattcaaaatattattgcagGGCCTATGGAAGTGGAAAGGAAGATAGTCCTCTCTGTGATGTGCCTGGGTTTGAAAACTGCAGGATGAAGTTGCTACGACATGTGTCCTTTGTAGATTGC
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tatttagcatttgatgatcaaatgtgaagaattatatgctgtgtcatgactcatgacgcccttgttcaccatctgttgattatgtttca--ttttaattaagGGCCTATGGAAGCGGAAAAGAAGATAGCCCTCTATGTGATGTGCCTGGATTTGAAAACACTAGAATGAAGCTCCTGAGACATGTTTCTTTTGTTGATTGC
upper sequence: Vv10s0042g01220.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G107654_T01 (Zea mays), 3'ss of exon 4
-----gtagggtgatgtctaatatatatatatatatatatatatctgtttttcatgttaacttcaggcttttcattgttatattcaaaatatt--attgcagGGCCTATGGAAGTGGAAAGGAAGATAGTCCTCTCTGTGATGTGCCTGGGTTTGAAAACTGCAGGATGAAGTTGCTACGACATGTGTCCTTTGTAGATTGC
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tatatattatttagcatttgctgatcaaaggcgaggaattatatgt-tgtgtcatgtaacccttgtgcaccatgt-gttgactttgtttcattcaaattaagGGCCTATGGAAGCGGAAAAGAAGATAGCCCTCTATGTGATGTGCCTGGATTTGAAAACACTAGAATGAAACTCCTGAGACATGTTTCTTTTGTTGATTGC
upper sequence: Vv10s0042g01220.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA08G18240.2 (Glycine max), 3'ss of exon 4
gtagggtgatgtctaatatatatatatatatatatatatctgtttttcatgttaacttcaggcttttcattgttatattcaaaatattattgcagGGCCTATGGAAGTGGAAAGGAAGATAGTCCTCTCTGTGATGTGCCTGGGTTTGAAAACTGCAGGATGAAGTTGCTACGACATGTGTCCTTTGTAGATTGC
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---------------gtgggtatttatttgtgtgccattatgttat-caagttagtttaa---cttttggtgagctgatcaatttttttctacagGGCTTATGGAAGTGGAAAGGAAGATAGTCCTATGTGTGACGTGCCAGGGTTTGAAAACAGCAAGATGAAATTGCTAAGGCATGTTTCATTTGTGGATTGT
upper sequence: Vv10s0042g01220.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA15G40750.1 (Glycine max), 3'ss of exon 4
gtagggtgatgtctaatatatatatatatatatatatatctgtttttcatgttaacttcaggcttttcattgttatattcaaaatattattgcagGGCCTATGGAAGTGGAAAGGAAGATAGTCCTCTCTGTGATGTGCCTGGGTTTGAAAACTGCAGGATGAAGTTGCTACGACATGTGTCCTTTGTAGATTGC
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----gtgggtatttattttacatttgccattatg-atatcagattatc---ttaacttttgg--------tgaggtgatcaatttttttctacagGGCTTATGGAAGTGGAAAGGAAGATAGTCCTATGTGTGATGTGCCAGGATTTGAAAACAGCAAGATGAAATTGCTGAGACATGTTTCATTTGTGGATTGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtttttcatgttaacttcaggcttttcattgttatattcaaaatattattgcagGGCCTATGGAAGTGGAAAGGAAGATAGTCCTCTCTGTGATGTGCCTGGGTTTGAAAACTGCAGGATGAAGTTGCTACGACATGTGTCCTTTGTAGATTGC
tgttaac putative branch site (score: 2)
ttttcattgttatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagggtgatgtctaatatatatatatatatatatatatctgtttttcatgttaacttcaggcttttcattgttatattcaaaatattattgcagGGCCTATGGAAGTGGAAAGGAAGATAGTCCTCTCTGTGATGTGCCTGGGTTTGAAAACTGCAGGATGAAGTTGCTACGACATGTGTCCTTTGTAGATTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG