Sequence
atgc intronic sequence ATGC exonic sequence...aatattagcaccatttcctgtgatagtatatgtataccaaagggaattttgtgtaaagtgtgtgatgaatgtttttaatgtatttatttctatcttttagGAGGTCCGACCGGTCAAGGAGGTCTCACCTGTGCTCTTGAATGCCATTCAGTCATTTCTTACATACT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0217g00060.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA18G43420.1 (Glycine max), 3'ss of exon 5
aatattagcaccatttcctgtga--tagtatatgtataccaaagggaattttgtgtaaagtgtgtgatgaatgtttttaatgtatttatttctatcttttagGAGGTCCGACCGGTCAAGGAGGTCTCACCTGTGCTCTTGAATGCCATTCAGTCATTTCTTACATACT
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atgatgatttctgtgtcttgaagtttagcacccttttattttttttcaaattg-ataaattcaaaatttaaggtattgggc-catatattactattttgtagGAGGTTCGGCCAGTCAAGGAAGTCTCACCTGTGCTCTTGAGTGCCATTCAATCACTCCTTCCATACT
upper sequence: Vv08s0217g00060.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA07G18530.1 (Glycine max), 3'ss of exon 5
aatattagcaccatttcctgtgat--agtatatgtataccaaagggaattttg--tgtaaagtgtgtgatgaatgtttttaatgtatttatttctatcttttagGAGGTCCGACCGGTCAAGGAGGTCTCACCTGTGCTCTTGAATGCCATTCAGTCATTTCTTACATACT
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----cgatttctgtgtcttgaagtttagcacccttttattttatccttttcaaattgataaatttaaaatttaaggtattgggccatatattactattatgtagGAGGTTCGGCCAGTCAAGGAAGTCTCACCTGTGCTCTTGAGTGCCATTCAATCACTCCTTCCATACT
upper sequence: Vv08s0217g00060.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA16G19490.1 (Glycine max), 3'ss of exon 6
aatattagcaccatttcctgtgatagtatatgtataccaaag---ggaattttgtgtaaagtg-------tgtgatgaatgtttttaatgtatttatttctatcttttagGAGGTCCGACCGGTCAAGGAGGTCTCACCTGTGCTCTTGAATGCCATTCAGTCATTTCTTACATACT--------------------
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----------taattctctatgacgatttctgtgtcttgaagtttagcacccttttcaaattgataaatttaaaatttaaggtattgggccatatattactattatgtagGAGGTTCGGCCAGTCAAGGAAGTCTCACCTGTGCTCTTGAGTGCCATTCAATCACTCCTTCCATACTGTGAGATTTCTATTTCTTGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attttgtgtaaagtgtgtgatgaatgtttttaatgtatttatttctatcttttagGAGGTCCGACCGGTCAAGGAGGTCTCACCTGTGCTCTTGAATGCCATTCAGTCATTTCTTACATACT
ttttaat putative branch site (score: 3)
tttatttctatctttt putative PPT
atgaatgtttttaatg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aatattagcaccatttcctgtgatagtatatgtataccaaagggaattttgtgtaaagtgtgtgatgaatgtttttaatgtatttatttctatcttttagGAGGTCCGACCGGTCAAGGAGGTCTCACCTGTGCTCTTGAATGCCATTCAGTCATTTCTTACATACT
- - - - - ccatttc
- - - - - - - - - - - - - - - - -ataccaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -gtgtgtg