Sequence
atgc intronic sequence ATGC exonic sequence...gtcactgtttatttcagaatttacttcttcatttttcttgtgtttcatgcaattttctcatttttcaagtgtgttaatgttccgctgcatagctatgcagGATGGTCCTGTAGTGCCAATTGGGAGGAGTCCTAGAACAGATGTCCTTCTAAATGCAGAAAAAGGAGTACTGGAGTTTGGTGGATGTGTTCTTAGATTGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0020g01880.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA15G10460.4 (Glycine max), 3'ss of exon 3
gtcactgtttatttcagaatttacttcttcatttttcttgtgtttcatgcaattttctcatttttcaagtgtgttaat-gttccgctgcatagctat------gcagGATGGTCCTGTAGTGCCAATTGGGAGGAGTCCTAGAACAGATGTCCTTCTAAATGCAGAAAAAGGAGTACTGGAGTTTGGTGGATGTGTTCTTAGATTGG
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-----ggtgtggtgt-gagcactcttctcc-tttcccatgtttttggcatggttgtctcaacaacaacgtatcttgttcatggggttagatatttatttctgtgcagGATAGTCCAGTGGTGCCAACAGGGAGGAGTCCCAGGACTGATGTCCTTCTAAAAGCTGAAAAAATAGTGCTGGAGTTTGGTGGTTCTGTTTTAAGACTGT
upper sequence: Vv05s0020g01880.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA08G09370.1 (Glycine max), 3'ss of exon 3
--------------------gtcactgtttatttcagaatttact-tcttcattt---ttcttgtgtttcatgcaattt-tctcatttttcaagtgt--gttaa--tgttccgctgcata-gctatgc---agGATGGTCCTGTAGTGCCAATTGGGAGGAGTCCTAGAACAGATGTCCTTCTAAATGCAGAAAAAGGAGTACTGGAGTTTGGTGGATGTGTTCTTAGATTGG
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gtgggtcatacatccaaattgtcatattcttttgttgttttctctgttttgatttaaattaaggagataattccagtctaccccaagatacagatgtttgttgatttatcctgatggatatacttcactttagGATTCTCCGGTTGTGCCTATCGGGAGGAGCCCCGGAGTTGATGTCCTTCTAAAAGCCGAAAATGTGGTACTGGAGTTTGGTGGCTGTGTTCTAAGATTGG
upper sequence: Vv05s0020g01880.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA05G26450.1 (Glycine max), 3'ss of exon 3
gtcact-gtttatttcag--aatttacttcttcatttttcttgtgtttcatgcaattttctcatttttcaagtgtgttaatgttccgctgcatagctatgcagGATGGTCCTGTAGTGCCAATTGGGAGGAGTCCTAGAACAGATGTCCTTCTAAATGCAGAAAAAGGAGTACTGGAGTTTGGTGGATGTGTTCTTAGATTGG
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gtatcttgttcacattggtcaactgatagtgtcagagtttccct-ttctatgtggtttagatgtttgttgatt-tatcc-tgatgggatatacttcactttagGATTCTCCGGTTGTGCCTATTGGGAGGAGCCCCAGAGTTGATGTCCTTCTAAAAGCTGAAAATGTGGTACTGGAGTTTGGTGGCTGTGTTGTGAGATTGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.catgcaattttctcatttttcaagtgtgttaatgttccgctgcatagctatgcagGATGGTCCTGTAGTGCCAATTGGGAGGAGTCCTAGAACAGATGTCCTTCTAAATGCAGAAAAAGGAGTACTGGAGTTTGGTGGATGTGTTCTTAGATTGG
tgttaat putative branch site (score: 3)
aattttctcattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcactgtttatttcagaatttacttcttcatttttcttgtgtttcatgcaattttctcatttttcaagtgtgttaatgttccgctgcatagctatgcagGATGGTCCTGTAGTGCCAATTGGGAGGAGTCCTAGAACAGATGTCCTTCTAAATGCAGAAAAAGGAGTACTGGAGTTTGGTGGATGTGTTCTTAGATTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
gtcactg
- - - - - - - - - - - -cttcttc
- - - - - - - - - - - - - - - - - - - - - - tcatgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccgctgc