Sequence
atgc intronic sequence ATGC exonic sequence...cattgtctagattagattttagtcaaagtggtgaattgcttttagttagacagtgatcattcttttactgataatgaagattggctgttgctgttactagACTGTCCAGACACAGGTAATAACGAGCAACTTGAATCCAGTCTGGAATGAGGAACTCATGCTTTCTGTGCCCATGGATTATGGGCCCATAAAAGTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0003g04900.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA09G02830.1 (Glycine max), 3'ss of exon 7
-------------cattgtctagattagattttagtcaaagtggtgaatt----gcttttagtt---agacagtgatcattcttttactgataatgaagattggctgttgct----gttactagACTGTCCAGACACAGGTAATAACGAGCAACTTGAATCCAGTCTGGAATGAGGAACTCATGCTTTCTGTGCCCATGGATTATGGGCCCATAAAAGTG
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gttggtatcactaaatgatcttgggaaactgttgctctgtatcttctatttatagttgtaaaatcagaaacagtaataattttctttctgaaattgatttggtgctattgcttaatgcctgcagACTGTCCAGACAACTATAATAAGGAGCAACTTGAATCCAGTCTGGAATGAGGAATACATGCTGTCTGTTCCTGAGCATTATGGACAGATAAAATTG
upper sequence: Vv10s0003g04900.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA08G13070.1 (Glycine max), 3'ss of exon 5
-----------------------------cattgtctagattagattttagtcaaagtggtgaattgcttttagttagacagtgatcattctt--ttactgataatgaagattggctgttgc----tgttactagACTGTCCAGACACAGGTAATAACGAGCAACTTGAATCCAGTCTGGAATGAGGAACTCATGCTTTCTGTGCCCATGGATTATGGGCCCATAAAAGTG
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gttggttgttctcacttctcattagcatatatattcttgggaaacttttgccctttatctt---ttatttttaattgaagagtagtagattttgataattttctttctgaattgactttggtgctatgcctccagACTGTTCAGACAACTGTAATAAAGAGTAATTTGAATCCAGTCTGGAATGAGGAACTTATGCTGTCTGTTCCTCAGCAATTTGGAATATTGAATTTG
upper sequence: Vv10s0003g04900.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA05G29940.1 (Glycine max), 3'ss of exon 5
-------------------------------------cattgtctagattagat-tttagtcaaagtggtgaattgcttttagttagacagtgatcattcttttactgataatgaagattggctgttgctgttactagACTGTCCAGACACAGGTAATAACGAGCAACTTGAATCCAGTCTGGAATGAGGAACTCATGCTTTCTGTGCCCATGGATTATGGGCCCATAAAAGTG
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gttggttgttctcagttctcattagcataaattaattcatgggaaacttttgctctttatcttttatttttaattgaagagtagtagatgttgataattttctttctga--attgactttggtgctatatgccttcagACTGTTCAGACAACTGTAATAAAGAGTAATTTGAATCCAGTCTGGAATGAGGAACTTATGCTGTCTGTTCCTCAGCAATTTGGAATATTGAATTTG
upper sequence: Vv10s0003g04900.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA15G13700.1 (Glycine max), 3'ss of exon 7
-------------cattgtctagattagattttagtcaaagtggtgaattgcttttagttagac-------agtgatcattcttttactgataatgaagattggctgttgct----gttactagACTGTCCAGACACAGGTAATAACGAGCAACTTGAATCCAGTCTGGAATGAGGAACTCATGCTTTCTGTGCCCATGGATTATGGGCCCATAAAAGTG
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gttggtgtcactatatgatcttgggaaactgttggtctataccttctatttatagttgtaaaatcagaaagagtaataattttctttctgaaattgatttggtgctattgcttaatgcctgcagACTGTCCAGACAACTATAATAAGGAGTAACTTGAATCCAGTCTGGAATGAGGAATACATGCTGTCTGTTCCCGAGCATTATGGACAGATGAAATTG
upper sequence: Vv10s0003g04900.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT4G21160.4 (Arabidopsis thaliana), 3'ss of exon 6
--------------------cattgtctagattagattttagtcaaagtggtgaattgcttttagttagacagtgatcattctt-ttactgataatgaagattggctgttgctgttactagACTGTCCAGACACAGGTAATAACGAGCAACTTGAATCCAGTCTGGAATGAGGAACTCATGCTTTCTGTGCCCATGGATTATGGGCCCATAAAAGTG
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gtaattatagtgaatacttttgaaatcttgaaaggttttctctttatatgttc--ttaccattgtttaagtgatcattattgtcatctctttttctgatcgttatc-atcgtt-ttaccagAAGGCTCAATCTACTGTAGTGAAGAGCAACTTAAACCCTGTCTGGAATGAGGAACTCATGCTCTCTGTTCCTCATAACTATGGCTCAGTGAAATTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttagacagtgatcattcttttactgataatgaagattggctgttgctgttactagACTGTCCAGACACAGGTAATAACGAGCAACTTGAATCCAGTCTGGAATGAGGAACTCATGCTTTCTGTGCCCATGGATTATGGGCCCATAAAAGTG
tactgat putative branch site (score: 2)
attctttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cattgtctagattagattttagtcaaagtggtgaattgcttttagttagacagtgatcattcttttactgataatgaagattggctgttgctgttactagACTGTCCAGACACAGGTAATAACGAGCAACTTGAATCCAGTCTGGAATGAGGAACTCATGCTTTCTGTGCCCATGGATTATGGGCCCATAAAAGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
cattgtc
- - - - - - - - - - - - - agtggtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aatgaaga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tggctgt