Sequence
atgc intronic sequence ATGC exonic sequencegtaagtaccagattgatttaatctctgttcattttcttccatagaagttggtcagattaatactttaacatgtatgactataatctcttctttctgttgccttaaagGTCAATATTTGGGGTCCCTCAGATCTTAAATATTTAGTTGATGCAATGAGATCCTTTATCCCAAATGCTGCCATGGTCCATACTCGTAGCTTTGGGCAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0002g04000.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os01g13150.1 (Oryza sativa), 3'ss of exon 7
gtaagtaccagattgatttaatc--tctgttcattttcttccataga----agttggtcagattaatactttaacatgta-tgactataatctcttctttctgttgccttaaagGTCAATATTTGGGGTCCCTCAGATCTTAAATATTTAGTTGATGCAATGAGATCCTTTATCCCAAATGCTGCCATGGTCCATACTCGTAGCTTTGGGCAAG
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gtgag-atcacat-gatttcatcattcccttcttttcagtacctaattgccaactcatcctgttataccttttctgcatactgattgtattgttcccttttatctgcaacatagGTGAATATATGGGGCCCTTCTGACCTAGATTTTTTAGCTAGTGCAATGAGATCCTTTATCCCAAATAGAGCAATGCTTCACACACATAGCTTTGGTGTGG
upper sequence: Vv09s0002g04000.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA13G43270.1 (Glycine max), 3'ss of exon 4
gtaagtaccagattgatttaatctctgttcattttcttccatagaagttggtcagattaatactttaacatgtatgactataatctcttctttctgttgccttaaagGTCAATATTTGGGGTCCCTCAGATCTTAAATATTTAGTTGATGCAATGAGATCCTTTATCCCAAATGCTGCCATGGTCCATACTCGTAGCTTTGGGCAAG
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-----------------gtaagcagcatttaat--cttcctttttcatcgtatatatttatattt----atctat---tataaatgatagtttcttttaatttgtagGTTAATATATGGGGGCCGTCAGATCTTAAGTATTTGGTAGATGCCATGAGATCTTTTATTCCCAATGCTGCCATGGTTCACACAAAGAGCTTCGGCCCCA
upper sequence: Vv09s0002g04000.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA15G02070.1 (Glycine max), 3'ss of exon 5
gtaagtaccagattgatttaatctctgttcattttcttccatagaagttggtcagattaatactttaacatgtatgactataatctcttctttctgttgccttaaagGTCAATATTTGGGGTCCCTCAGATCTTAAATATTTAGTTGATGCAATGAGATCCTTTATCCCAAATGCTGCCATGGTCCATACTCGTAGCTTTGGGCAAG-
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gtaagtagca------tttaacttca---tataatcttccatt----ttcatcatatatatatatttatct-----actataaatgatagtttcttttaatttgtagGTTAATATATGGGGGCCATCTGATCTCAAGTATTTAGTAGATGCCATGAGATCTTTTATTCCCAATGCTGCCATGGTTCACACAAG-AGCTTTGGGCCCAT
upper sequence: Vv09s0002g04000.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT3G16260.1 (Arabidopsis thaliana), 3'ss of exon 5
gtaagtaccagattgatttaatctctgttcattttcttccatagaagttggtcagattaatactttaacatgtatgactataatctcttc----------tttctgttgccttaaagGTCAATATTTGGGGTCCCTCAGATCTTAAATATTTAGTTGATGCAATGAGATCCTTTATCCCAAATGCTGCCATGGTCCATACTCGTAGCTTTGGGCAAG
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gtgagtgttcttctcatatgatctctttgtatgtttcctgtctgcttttcctgagcttatgacaattat-tatatgagtggaattgctcaacttctaaaatctcttttgttacaaagGTCAACGTATGGGGTCCTTCAGATCTTAAGTATTTGGTTGATGCTATGAGGTCATTTATCCCTCGTGCTGCCATGGTTCATACAAGAAGTTTTGGTCCAT
upper sequence: Vv09s0002g04000.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT1G52160.1 (Arabidopsis thaliana), 3'ss of exon 5
gtaagtaccagattgatttaatctctgttcattttcttccatagaagttggtcagattaatactttaacatgtatgactataatctcttctttctgttgccttaaagGTCAATATTTGGGGTCCCTCAGATCTTAAATATTTAGTTGATGCAATGAGATCCTTTATCCCAAATGCTGCCATGGTCCATACTCGTAGCTTTGGGCAAG
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---------------------------gtgagtattattgacatatttttgtgtgtttcttcttgtgtatgaaattgctgaagtattgtttttttgttac---aaagGTGAATGTATGGGGTCCTTCGGATCTTAACTATTTAGTTGATGCAATGAAGTCGTTTATTCCACGGGCAGCTATGGTTCATACACGGAGTTTTGGTCCCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cagattaatactttaacatgtatgactataatctcttctttctgttgccttaaagGTCAATATTTGGGGTCCCTCAGATCTTAAATATTTAGTTGATGCAATGAGATCCTTTATCCCAAATGCTGCCATGGTCCATACTCGTAGCTTTGGGCAAG
ctttaac putative branch site (score: 3)
tctcttctttctgttg putative PPT
taatactttaacat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtaccagattgatttaatctctgttcattttcttccatagaagttggtcagattaatactttaacatgtatgactataatctcttctttctgttgccttaaagGTCAATATTTGGGGTCCCTCAGATCTTAAATATTTAGTTGATGCAATGAGATCCTTTATCCCAAATGCTGCCATGGTCCATACTCGTAGCTTTGGGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC