Sequence
atgc intronic sequence ATGC exonic sequence...aaatccttagatcatagttgtttagtcagtggattgtttatttatttgtaaacagaaagcttaatatgaatatcaagttgaatgatatctgtatttgtagGTGGCATGGTTCTTCATAAGGGAGAAATAGCTGAAATGAGAACTGGAGAAGGAAAGACCCTTGTTGCAATTTTACCAGCTTATTTGAATGCATTAAGTGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0005g02610.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA10G27810.1 (Glycine max), 3'ss of exon 2
aaatccttagatcatagttgtttagtcagtggattgtttatttatttgtaaacagaaagcttaatatgaatatcaagt-tgaatgatatctgta-----tttgtagGTGGCATGGTTCTTCATAAGGGAGAAATAGCTGAAATGAGAACTGGAGAAGGAAAGACCCTTGTTGCAATTTTACCAGCTTATTTGAATGCATTAAGTGG
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------ttgccttattgtggtgtactctagcccgtgctatttagtgtgtatataaatatatgcgtaagagaataatttatgaatattgttagttcgggtcttgtagGAGGCATGGTTCTTCATAAGGGAGAAATAGCTGAAATGAGGACTGGAGAAGGAAAGACACTGGTTGCTGTTTTGCCAGCTTATTTGAATGCATTGAGTGG
upper sequence: Vv07s0005g02610.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA02G01060.1 (Glycine max), 3'ss of exon 2
aaatccttagatcatagttgtttagtcagtggattgtttatt-tatttgtaaacagaaagcttaatatgaatatcaagttgaatgatatctgtat-----ttgtagGTGGCATGGTTCTTCATAAGGGAGAAATAGCTGAAATGAGAACTGGAGAAGGAAAGACCCTTGTTGCAATTTTACCAGCTTATTTGAATGCATTAAGTGG
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---tacatagtgtagtgtactctagcttgtg--ctatttagtgtatttataaatatat-gtgtaagaggataatttattaatattgtgttagtttgggtcttgtagGAGGCATGGTTCTTCATAAGGGAGAAATAGCTGAAATGAGGACCGGAGAAGGGAAGACACTGGTTGCTGTTTTGCCAGCTTATTTAAATGCATTGAGTGG
upper sequence: Vv07s0005g02610.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT4G01800.1 (Arabidopsis thaliana), 3'ss of exon 2
aaatccttagatcatagttgtttagtcagtggattgtttatttatttgtaaaca-gaaagcttaatatgaatatcaagttgaatgatatctgtatttgtagGTGGCATGGTTCTTCATAAGGGAGAAATAGCTGAAATGAGAACTGGAGAAGGAAAGACCCTTGTTGCAATTTTACCAGCTTATTTGAATGCATTAAGTGG
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--------gtaacacagtc-tctgtggaatgttattctaatggtctcactgttatgaaagacttttttgagtggagtctctctatatggttttaattgcagGTGGTATGGTTCTTCATAAAGGAGAAATAGCTGAAATGAGAACTGGTGAAGGGAAAACGCTTGTTGCTATTTTACCAGCTTATTTGAATGCATTAAGTGG
upper sequence: Vv07s0005g02610.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: EFJ15249 (Selaginella moellendorffii), 3'ss of exon 2
aaatccttagatcatagttgtttagtcagtggattgtttatttatttgtaaacagaaagcttaatatgaatatcaagttgaatgatatctgtatttgtagGTGGCATGGTTCTTCATAAGGGAGAAATAGCTGAAATGAGAACTGGAGAAGGAAAGACCCTTGTTGCAATTTTACCAGCTTATTTGAATGCATTAAGTGG
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-------------------------------------gtaagcaatggataaaatcaagtgtggtctccttcacagtttcg----tgttcttcttt-cagGTGGCATGGTTCTTCACAAGGGTCAGATTGCTGAGATGAAAACTGGAGAAGGAAAAACTCTTGTTGCTGTTCTTCCAGCATATTTGAATGCTTTAAGCGG
upper sequence: Vv07s0005g02610.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: EFJ08380 (Selaginella moellendorffii), 3'ss of exon 2
aaatccttagatcatagttgtttagtcagtggattgtttatttatttgtaaacagaaagcttaatatgaatatcaagttgaatgatatctgtatttgtagGTGGCATGGTTCTTCATAAGGGAGAAATAGCTGAAATGAGAACTGGAGAAGGAAAGACCCTTGTTGCAATTTTACCAGCTTATTTGAATGCATTAAGTGG
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-------------------------------------------gtaagcaatggataaatcaagtgtggtctccttgacagtttcgtgttcttctttcagGTGGCATGGTTCTTCACAAGGGTCAGATTGCTGAGATGAAAACTGGAGAAGGAAAAACTCTTGTTGCTGTTCTTCCAGCATATTTGAATGCTTTAAGCGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgtaaacagaaagcttaatatgaatatcaagttgaatgatatctgtatttgtagGTGGCATGGTTCTTCATAAGGGAGAAATAGCTGAAATGAGAACTGGAGAAGGAAAGACCCTTGTTGCAATTTTACCAGCTTATTTGAATGCATTAAGTGG
gcttaat putative branch site (score: 4)
ttaatatgaatatcaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaatccttagatcatagttgtttagtcagtggattgtttatttatttgtaaacagaaagcttaatatgaatatcaagttgaatgatatctgtatttgtagGTGGCATGGTTCTTCATAAGGGAGAAATAGCTGAAATGAGAACTGGAGAAGGAAAGACCCTTGTTGCAATTTTACCAGCTTATTTGAATGCATTAAGTGG
- - - - - - - - - - - - - - -tggattg
- - - - - - - - - - - - - - - - - - - - - - - - - aacagaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aatatgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaatgata