Sequence
atgc intronic sequence ATGC exonic sequence...aaaattttcttagcggccaaacagagggtaaaatgcaaatgtagattttgattttctgccatgatcgggatatttaaatttcgaaattgttcgtgttcagGTGAAAACAACGAATCCGAAGAAGTATTGTGTTCGTCCGAATACCGGAATTGTCTTGCCTCGGTCGACATGTGACATCTTAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0154g00500.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA17G15010.2 (Glycine max), 3'ss of exon 2
aaaattttcttagcggccaaacagagggtaaaatgcaaatgtagattttgattttctgccatgatcgggatatttaaatttcgaaa-ttgttcgtgtt-------cagGTGAAAACAACGAATCCGAAGAAGTATTGTGTTCGTCCGAATACCGGAATTGTCTTGCCTCGGTCGACATGTGACATCTTAG------------------
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--tttaaccgtgtcaagttagcgtaatgtaggattgaaacggcactttt----ttttgcagtgtttgtgagat--aagtttggaaaattttgcgtgtttgtttttcagGTGAAAACAACCAATCCGAAGAAGTATTGTGTTCGTCCGAACACTGGGGTTGTCACGCCTCGATCTACGTGTGATGTTATCGGTACTAATATGGTTATTC
upper sequence: Vv02s0154g00500.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA17G15010.1 (Glycine max), 3'ss of exon 2
aaaattttcttagcggccaaacagagggtaaaatgcaaatgtagattttgattttctgccatgatcgggatatttaaatttcgaaa-ttgttcgtgtt-------cagGTGAAAACAACGAATCCGAAGAAGTATTGTGTTCGTCCGAATACCGGAATTGTCTTGCCTCGGTCGACATGTGACATCTTAG
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--tttaaccgtgtcaagttagcgtaatgtaggattgaaacggcactttt----ttttgcagtgtttgtgagat--aagtttggaaaattttgcgtgtttgtttttcagGTGAAAACAACCAATCCGAAGAAGTATTGTGTTCGTCCGAACACTGGGGTTGTCACGCCTCGATCTACGTGTGATGTTATCG
upper sequence: Vv02s0154g00500.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA05G04580.1 (Glycine max), 3'ss of exon 2
--aaaattttcttagcggccaaacagagggt-aaaatgcaaatgtagattttgat-tttctgccatgatcgggatatttaaatttcgaaattgttcgtgttcagGTGAAAACAACGAATCCGAAGAAGTATTGTGTTCGTCCGAATACCGGAATTGTCTTGCCTCGGTCGACATGTGACATCTTAG
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tcaaacgtgtcaggttagcgtaatgtaggattgaaacggcacttttttttgcagtgtttgtgagataattt--atgcaaaaattgcgtgtttgtt--ttttaagGTGAAAACAACCAATCCGAAGAAGTATTGTGTTCGTCCGAACACTGGTATTGTCACGCCACGATCTACGTGTGATGTTATCG
upper sequence: Vv02s0154g00500.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA11G03480.2 (Glycine max), 3'ss of exon 2
--------aaaattttcttagcggccaaacag--agggtaaaatgcaaatgta-gattttgattttctgccatgatcgggatatttaaatt---------tcgaaattgttcgtgtt-cagGTGAAAACAACGAATCCGAAGAAGTATTGTGTTCGTCCGAATACCGGAATTGTCTTGCCTCGGTCGACATGTGACATCTTAG
|| |||| | | | | | || | | | || |||||| | ||| || ||||| || | | || || || | |||||||||||||| ||||| |||||||||||||||||||| || |||||| | ||| |||| | || |||||||| | | |
gtaattaccaacctttcatttcaactcgctttcttaatttcattgtgattttgcgaaacattttttctcctgagatttacatgtttaatttaatttgtattgtgatttctttgtttcacagGTGAAAACAACCAATCCCAAGAAGTATTGTGTTCGTCCAAACACCGGAGTAGTCATGCCACAATCTACATGTGATGTTATTG
upper sequence: Vv02s0154g00500.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA01G41900.1 (Glycine max), 3'ss of exon 2
----------------------------------------aaaattttcttagcggccaaacagagggtaaaatgcaaatgtagattttgattttctgccatgatcg--ggatatttaaattt----cgaaattgttcgtgtt----cagGTGAAAACAACGAATCCGAAGAAGTATTGTGTTCGTCCGAATACCGGAATTGTCTTGCCTCGGTCGACATGTGACATCTTAG
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gtaattaaccaacctttcatttcaactcgctttcttatttgatcttgtttcaagtaccatttcattgtgattttgcaaa---acattttttttttctcgtgaaattattgcatgtttaattttgtattgtgatttctttttttttcacagGTGAAAACAACCAATCCCAAGAAGTATTGTGTTCGTCCAAACACCGGAGTAGTCATGCCACAATCTGCATGTGATGTTATTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttgattttctgccatgatcgggatatttaaatttcgaaattgttcgtgttcagGTGAAAACAACGAATCCGAAGAAGTATTGTGTTCGTCCGAATACCGGAATTGTCTTGCCTCGGTCGACATGTGACATCTTAG
ttttgat putative branch site (score: 4)
atatttaaatttcgaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaaattttcttagcggccaaacagagggtaaaatgcaaatgtagattttgattttctgccatgatcgggatatttaaatttcgaaattgttcgtgttcagGTGAAAACAACGAATCCGAAGAAGTATTGTGTTCGTCCGAATACCGGAATTGTCTTGCCTCGGTCGACATGTGACATCTTAG
- - - - - - - - ccaaaca
- - - - - - - - - - - - - ggtaaaa
- - - - - - - - - - - - - - - - - gcaaatg