Sequence
atgc intronic sequence ATGC exonic sequence...tctgcacagtgttgtcctctatgtttgaatctttattctactctatttaacctagttacgtgtatatttattgcggtttctcttcatgttggcttttcagCTTAGCTGTCATGATGCTTCTCTTGCCATAAAGCCTGTATTTGAACGATTTCAATCAGTTGTGATTACATCTGGAACTCTAAGCCCCATTGATCTCTATC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0104g00060.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA02G09080.1 (Glycine max), 3'ss of exon 4
-------------------------tctgcacagtgttgtcctctatgtttgaat----ctttattctactctatttaacctagttacgtgtatatttattgcggtttctcttcatgtt-----------ggcttttcagCTTAGCTGTCATGATGCTTCTCTTGCCATAAAGCCTGTATTTGAACGATTTCAATCAGTTGTGATTACATCTGGAACTCTAAGCCCCATTGATCTCTATC
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gttagcattgttgttttgatttttatttactctatttgctgttttaaccttaaaattagttctgttttgcaacatttatttatttcctgtgtttatctagtactctttttcttactccttttttatcaataacatttcagCTTTGTTGCCATGATGCTTCTCTTGCTATCAAGCCAGTTTTTGAGCGATTTCAGTCTGTTGTGATTACATCTGGTACACTAAGCCCAATAGATTTGTACC
upper sequence: Vv07s0104g00060.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA16G28290.1 (Glycine max), 3'ss of exon 4
--------------------------tctgcacagtgttgtcctctatgtttgaat----ctttattctactctatttaacctagttacgtgtatatttattgcggtttctcttcatgttgg-------------cttttcagCTTAGCTGTCATGATGCTTCTCTTGCCATAAAGCCTGTATTTGAACGATTTCAATCAGTTGTGATTACATCTGGAACTCTAAGCCCCATTGATCTCTATC
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gttagcattgttgtttttgatttttatttactctatttgctgttttaaccttaaaattagctctgttatgcaacatttatttatttcctgcgtttatctagtaccctttttcttattattattattattttttatcatttcagCTTTGTTGCCATGATGCTTCTCTTGCTATCAAGCCAGTTTTTGAGCGATTTCAGTCTGTTGTGATTACATCTGGCACACTAAGCCCAATAGATTTGTACC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttaacctagttacgtgtatatttattgcggtttctcttcatgttggcttttcagCTTAGCTGTCATGATGCTTCTCTTGCCATAAAGCCTGTATTTGAACGATTTCAATCAGTTGTGATTACATCTGGAACTCTAAGCCCCATTGATCTCTATC
atttaac putative branch site (score: 3)
cttttc putative PPT
tgtatatttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tctgcacagtgttgtcctctatgtttgaatctttattctactctatttaacctagttacgtgtatatttattgcggtttctcttcatgttggcttttcagCTTAGCTGTCATGATGCTTCTCTTGCCATAAAGCCTGTATTTGAACGATTTCAATCAGTTGTGATTACATCTGGAACTCTAAGCCCCATTGATCTCTATC
-ctgcaca
- - - - - - tgtcctc