Sequence
atgc intronic sequence ATGC exonic sequence...ctggatacatagggtgcacccctctctttggtgctttttagtccatgttggtgttgtctatcaatttccccccctcactactgtgtttgtcaatatgcagGAACGCAAACCTGAGCTGTCATCTGAGATAATGGCTTTTAGGGATTATCTCTTGTCATCAACAATATCAGATACTCTTGATGTTTGGGAGCTAAAGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0034g02230.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA08G20020.1 (Glycine max), 3'ss of exon 5
ctggatacatagggtgcacccctctctttggtgctttttagtccatgttggtgttg-----tctatcaatttccccccctcact--actgtgtttgtcaatatgcagGAACGCAAACCTGAGCTGTCATCTGAGATAATGGCTTTTAGGGATTATCTCTTGTCATCAACAATATCAGATACTCTTGATGTTTGGGAGCTAAAGG
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------gcattttctac-tctatctgttcgatatcaataaattgacattcatatttaaaattttgttgtttgtacatatgtatttaactgtttgtgtttatgtgcagGAGCGTAAACCCGAGTTAGCATCTGAGATCATGACTTTCAGGGATTATCTATTGTCATCAACTGTATCAGATACACTTGATGTTTGGGAATTAAAGG
upper sequence: Vv12s0034g02230.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA05G30230.1 (Glycine max), 3'ss of exon 6
--------------ctggatacatagggtgcacccctctctttggtgctttttagtccatgttggtgttgtctatcaatttccccccctcactactgtgtttgtcaatatgcagGAACGCAAACCTGAGCTGTCATCTGAGATAATGGCTTTTAGGGATTATCTCTTGTCATCAACAATATCAGATACTCTTGATGTTTGGGAGCTAAAGG
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gtatattcatatttatggtgatgtataatcattgccccacctcaaaattatccag---acactagtgttaccaataaatttacc-----------tgtttttgtttaatcacagGAACGTAAAACTGAGTTAACATCTGAGGTCATGGCTTTTCGGGATTATCTATTGTCATCAACTGTATCAGACACACTTGATGTTTGGGAATTAAAGG
upper sequence: Vv12s0034g02230.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA08G13400.1 (Glycine max), 3'ss of exon 6
-------ctggatac-atagg-gtgcacccctctctttggtgctttttagtcc--atgttggtgttgtctatcaatttccccccctcactactgtgtttgtcaatatgcagGAACGCAAACCTGAGCTGTCATCTGAGATAATGGCTTTTAGGGATTATCTCTTGTCATCAACAATATCAGATACTCTTGATGTTTGGGAGCTAAAGG
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aaaatttcatgacattataaaagtatattcattgcccgaccacaaaattatccagacactagtgttaccaataaatttacc-----------tgtttttgtttactcacagGTGCGTAAACCCGAGTTAGCATCTGAGGTCATGGCTTTTCGGGATTATCTATTGTCATCAACTGTATCAGACACACTTGATGTTTGGGAATTAAAGG
upper sequence: Vv12s0034g02230.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT1G71220.1 (Arabidopsis thaliana), 3'ss of exon 5
--ctggatacatagggtgcacccctctctttggtgcttttta-gtccatgttggtgttgtctatcaatttccccccctcactactgtgtttgtcaatatgcagGAACGCAAACCTGAGCTGTCATCTGAGATAATGGCTTTTAGGGATTATCTCTTGTCATCAACAATATCAGATACTCTTGATGTTTGGGAGCTAAAGG
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agatggacgaagataagagaggaatgacagagaatttttttgtagcagctttttcattttctttagagtgatcgttaaggtcaatgctcctct---tttgcagGACAGGAAACCCGAGCTAAGATCAGAAGTCATGGCTTTTAGGGATTATCTCCTATCATCAACAGTATCAGACACGCTTGATGTTTGGGAGCTGAAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgttggtgttgtctatcaatttccccccctcactactgtgtttgtcaatatgcagGAACGCAAACCTGAGCTGTCATCTGAGATAATGGCTTTTAGGGATTATCTCTTGTCATCAACAATATCAGATACTCTTGATGTTTGGGAGCTAAAGG
ccctcac putative branch site (score: 3)
tatcaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctggatacatagggtgcacccctctctttggtgctttttagtccatgttggtgttgtctatcaatttccccccctcactactgtgtttgtcaatatgcagGAACGCAAACCTGAGCTGTCATCTGAGATAATGGCTTTTAGGGATTATCTCTTGTCATCAACAATATCAGATACTCTTGATGTTTGGGAGCTAAAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - -ccctctc
- - - - - - - - - - - - - - tggtgct
- - - - - - - - - - - - - - - - - - - - - ccatgtt
- - - - - - - - - - - - - - - - - - - - - - - - -ggtgttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctatcaa