Sequence
atgc intronic sequence ATGC exonic sequencegttgtttactactgtaaacgcatgtttgaactgaattagttttgcattgtaatttaatgaagaatttatttgcaatgttgatatagggtttgttctcattcttgtatttgctcatggaaagagtaaaatggattctcatttttttagGTCAGAGATAGCATGCGGTTTGTTGAAGTGGTTCTGGTGGAACCAGAAAAACATGTTGTTGCACTGGCAGATGCATATTTCTTCCCTCCTTTCCAGCCAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0225g00090.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os04g04950.1 (Oryza sativa), 3'ss of exon 2
gttgtttactactgtaaacgcatgtttgaactgaattagttttgcattgtaatttaatgaagaatttatttgcaatgttgatatagggtttgttctcattcttgtatttgctcatggaaagagtaaaatggattctcatttttttagGTCAGAGATAGCATGCGGTTTGTTGAAGTGGTTCTGGTGGAACCAGAAAAACATGTTGTTGCACTGGCAGATGCATATTTCTTCCCTCCTTTCCAGCCAT
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-----------------------gtctgtcc--acctacttctac--tgttggctagta------ctaccccttaattttatacaaatatgctatatattctttgaataaataatttaca-agtaacttacaa---catatatatagGTCCGAGATGGCATGCGTTTTGTTGAAGTTGCGCTCCTGGAACCAGAAAAGAATGTTGTGGCATTAGCTGATGCATACTTTTTCCCACCATTCCAACCAT
upper sequence: Vv00s0225g00090.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA02G04360.1 (Glycine max), 3'ss of exon 2
gttgtttactactgtaaacgcatgtttgaactgaattagttttgcattgtaatttaatgaagaatttatttgcaatgttgatatagggtttgttctca-ttcttgtatttgctcatggaaagagtaaaatggattctcatttttttagGTCAGAGATAGCATGCGGTTTGTTGAAGTGGTTCTGGTGGAACCAGAAAAACATGTTGTTGCACTGGCAGATGCATATTTCTTCCCTCCTTTCCAGCCAT
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--------------------------------------------aatcagagacccatataggactaaattatgtatttaaccaaaaatcaacaattggttctccagattcatcatgtgcaaaattatttga----ttattttgttagGTGAGGGATAGTATGCGCTTTGTTGAAGTAGTCTTGGTAGAACCAGATAAGCAAGTTGTTGCATTAGCAGATGCATATTTCTTCCCTCCTTTCCAGCCAT
upper sequence: Vv00s0225g00090.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA18G20800.1 (Glycine max), 3'ss of exon 2
gttgtttactactgtaaacgcatgtttgaactgaattagttt---tgcattgtaatttaatgaagaatttatttgcaatgttgat-atagggtttgttctcattcttgtatttgctcatggaaagagtaaaatggattctcatttttttagGTCAGAGATAGCATGCGGTTTGTTGAAGTGGTTCTGGTGGAACCAGAAAAACATGTTGTTGCACTGGCAGATGCATATTTCTTCCCTCCTTTCCAGCCAT-
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----tacataactcattttcctccttggtatacattttgcttgggtttactaccaagtaatggcaaaactgtgttagacattgcccatcaagctataacctctctatattactgtttatgcat---gttgatgaagttctttgattatcaggTGAGGGATAGCATGCGCTTTATTGAAGTAGACCTGGTAGAACCAGAAAAGCAAGTTGTTGCATTAGCAGATGCATATTTCTTCCCTCCTTTCCAACCATC
upper sequence: Vv00s0225g00090.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA08G38990.1 (Glycine max), 3'ss of exon 2
gttgtttactactgtaaacgcatgtttgaactgaattagttttgc---attgtaatttaatgaagaatttatttgcaatgttgata--tagggtttgttctc---attcttgtatttgctcatggaaagagtaaaatggattctcatttttttagGTCAGAGATAGCATGCGGTTTGTTGAAGTGGTTCTGGTGGAACCAGAAAAACATGTTGTTGCACTGGCAGATGCATATTTCTTCCCTCCTTTCCAGCCAT
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---gtacataactcattttcctccttggtatacattttgcttggctatactaccaagtaatggcaaaactgtgctagacattgcccatcaagctataacctctatattactgtttctgcatgttgatgaagtt-------ctttgatcatcttagGTGAGGGATGGCATGCGCTTTATTGAAGTAGACCTGGTAGAACCAGAAAAGCAAGTTGTTGCATTAGCAGATGCATATTTCTTCCCTCCTTTCCAACCAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttctcattcttgtatttgctcatggaaagagtaaaatggattctcatttttttagGTCAGAGATAGCATGCGGTTTGTTGAAGTGGTTCTGGTGGAACCAGAAAAACATGTTGTTGCACTGGCAGATGCATATTTCTTCCCTCCTTTCCAGCCAT
ttctcattttttt CT-rich tract
attctcattttttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttgtttactactgtaaacgcatgtttgaactgaattagttttgcattgtaatttaatgaagaatttatttgcaatgttgatatagggtttgttctcattcttgtatttgctcatggaaagagtaaaatggattctcatttttttagGTCAGAGATAGCATGCGGTTTGTTGAAGTGGTTCTGGTGGAACCAGAAAAACATGTTGTTGCACTGGCAGATGCATATTTCTTCCCTCCTTTCCAGCCAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG