Sequence
atgc intronic sequence ATGC exonic sequence...tgctctgtgtgctgtaatttgttattaagtaaagtttggctctattgttcatggtggtttcatttatttagtttttttatactgagtatttgcattgcagATTAGGAGTCATGCCCAGAAATACTTTTTAAAGGTCCAAAAGAATGGGACAGTAGCACATGTGCCACCGCCTCGCCCAAAGCGCAAAGCTATTCATCCTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0040g03220.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA19G36170.1 (Glycine max), 3'ss of exon 3
tgctctgtgtgctgtaatttgttattaagtaaagtttggctctattgtt-catggtggtttcatttatttagtttttttatactgagtatttgcattgcagATTAGGAGTCATGCCCAGAAATACTTTTTAAAGGTCCAAAAGAATGGGACAGTAGCACATGTGCCACCGCCTCGCCCAAAGCGCAAAGCTATTCATCCTT
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-gttaggaaaaagctcttcagctatgtgttctaatttctatcttctgttatgccattatgttgtatctctcacagtctcaccatgagttttc----ttcagATTAGAAGTCATGCCCAGAAGTACTTCTTGAAAGTTCAAAAGAGCGGGACAGTAGCACATGTGCCTCCTCCTCGGCCTAAGCGCAAAGCTTCTCATCCTT
upper sequence: Vv08s0040g03220.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA10G05560.1 (Glycine max), 3'ss of exon 2
tgctctgtgtgctgtaatttgttattaagtaaagtttggctctattgttcatggtggtttcatttatttagtttttttatactgagtatttgcattgcagATTAGGAGTCATGCCCAGAAATACTTTTTAAAGGTCCAAAAGAATGGGACAGTAGCACATGTGCCACCGCCTCGCCCAAAGCGCAAAGCTATTCATCCTT
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--------gtacggtgactgctttttcagta-----tgtctatattctatacgg--gcattattt-----gtcactaacgaattactttttg--ttatagATTCGAAGCCATGCCCAGAAATACTTCTTGAAAGTTCAAAAGAATGGGACTGTGGCACATGTGCCTCCTCCCCGTCCAAAGCGCAAAGCTGCTCATCCTT
upper sequence: Vv08s0040g03220.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA13G19910.1 (Glycine max), 3'ss of exon 2
tgctctgtgtgctgtaatttgttattaagtaaagtttggctctattgttcatggtggtttcatttatttagtttttttatactgagtatttgcatt--gcagATTAGGAGTCATGCCCAGAAATACTTTTTAAAGGTCCAAAAGAATGGGACAGTAGCACATGTGCCACCGCCTCGCCCAAAGCGCAAAGCTATTCATCCTT
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----------------gttaggagtctgcttt--ttcagctctattgtctata----ttctactgggc--attatttgtcactaactaatgacttttgtcagATTCGAAGCCATGCTCAGAAGTACTTCTTGAAAGTTCAAAAGAATGGGACAGTGGCACATGTGCCTCCTCCCCGTCCAAAGCGCAAAGCTGCTCATCCTT
upper sequence: Vv08s0040g03220.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA03G33440.1 (Glycine max), 3'ss of exon 2
tgctctgtgtgctgtaatttgttattaagtaaagtttggctctattgttcatggtggtttcatttatttagtttttttatactgagtatttgcat---tgcagATTAGGAGTCATGCCCAGAAATACTTTTTAAAGGTCCAAAAGAATGGGACAGTAGCACATGTGCCACCGCCTCGCCCAAAGCGCAAAGCTATTCATCCTT
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-----gttaggaaacagctcttcagctaggtgttctaatttctatcttctgttatgccattatgt-tgtatctctcacagtctcactattaagttgtcttcagATCAGAAGTCATGCCCAGAAGTACTTCTTGAAAGTTCAAAAGAACGGGGCAGTAGCACACGTGCCTCCTCCTCGGCCTAAGCGCAAAGCTTCTCATCCTT
upper sequence: Vv08s0040g03220.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: EFJ36434 (Selaginella moellendorffii), 3'ss of exon 2
tgctctgtgtgctgtaatttgttattaagtaaagtttggctctattgttcatggtggtttcatttatttagtttttttatactgagtatttgcattgcagATTAGGAGTCATGCCCAGAAATACTTTTTAAAGGTCCAAAAGAATGGGACAGTAGCACATGTGCCACCGCCTCGCCCAAAGCGCAAAGCTATTCATCCTT
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----------------------------gtgaaattcctttgctttattcatgttcttcgcggggatttagttcgttagtgtgtgacaatttc----cagATTAGAAGTCATGCCCAGAAGTATTTTTTGAAAGTCCAGAAGAATGGAACTGGAGAACACGTTCCTCCTCCACGGCCGAAGCGTAAATCTGCTCAACCAT
upper sequence: Vv08s0040g03220.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: EFJ04991 (Selaginella moellendorffii), 3'ss of exon 2
tgctctgtgtgctgtaatttgttattaagtaaagtttggctctattgttcatggtggtttcatttatttagtttttttatactgagtatttgcattgcagATTAGGAGTCATGCCCAGAAATACTTTTTAAAGGTCCAAAAGAATGGGACAGTAGCACATGTGCCACCGCCTCGCCCAAAGCGCAAAGCTATTCATCCTT
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----------------------------gtgaaattcctttgctttattcatgttcttcgcggggatttagttcgttagtgtgtgacaatttc----cagATTAGAAGTCATGCCCAGAAGTATTTTTTGAAAGTCCAGAAGAATGGAACTGGAGAACACGTTCCTCCTCCACGGCCGAAACGTAAATCTGCTCAACCAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgttcatggtggtttcatttatttagtttttttatactgagtatttgcattgcagATTAGGAGTCATGCCCAGAAATACTTTTTAAAGGTCCAAAAGAATGGGACAGTAGCACATGTGCCACCGCCTCGCCCAAAGCGCAAAGCTATTCATCCTT
tttcatttatttagtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgctctgtgtgctgtaatttgttattaagtaaagtttggctctattgttcatggtggtttcatttatttagtttttttatactgagtatttgcattgcagATTAGGAGTCATGCCCAGAAATACTTTTTAAAGGTCCAAAAGAATGGGACAGTAGCACATGTGCCACCGCCTCGCCCAAAGCGCAAAGCTATTCATCCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - -tgtgtgc
- - - - - - - - - - - - - aagtaaa
- - - - - - - - - - - - - - - - - - - - - - - -ttcatgg