Sequence
atgc intronic sequence ATGC exonic sequence...acgtttttatttattgtttgtttattattttataaaaaaaaatgtgaagattaattgtgtaagtgatactgaaggattctttttccctttttggctgtagGAGCTGGCCGTCATTGTGGCAAGAGGAAGAGACAATTCTATTTTGTGCTATCCTGTTGTTGAAACTATTCACAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0081g00240.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os01g10280.4 (Oryza sativa), 3'ss of exon 6
-acgtttttatttattgtttgtttattattttataaaaaaaaatgtgaagattaattgtgtaagtgatactgaaggattctttttccctttttggctgtagGAGCTGGCCGTCATTGTGGCAAGAGGAAGAGACAATTCTATTTTGTGCTATCCTGTTGTTGAAACTATTCACAA
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tgctctaatgtttacaacattgtcatggttt-atggttgatgaccttttgaattaagatacttctattatttatagtctgttgctttctttcttgttttagGAGCTTTCTGTCATTGTGGCAAGGAGCAGAGACGGTTCTACGGTGTGCTATCCTGTTGTTGAAACCATCCACAA
upper sequence: Vv14s0081g00240.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA10G30620.1 (Glycine max), 3'ss of exon 5
acgtttttatttattgtttgtttattattttataaaaaa----aaatgtga-agattaattgt--gtaagtgatactgaaggattctttttccctttttggctgtagGAGCTGGCCGTCATTGTGGCAAGAGGAAGAGACAATTCTATTTTGTGCTATCCTGTTGTTGAAACTATTCACAA
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------ttgttcaaaaaatgtcttttatttcttaaaacttcccaattttgtcatgttatttatgagtttatggaccttacatatt-tttctcccaaaataatgacagGAGCTAGCAGTTATTGTGGCGAGAGGAAGAGACAATTCAATTTCATGCTATCCTGTTGTTGAAACTATACACAG
upper sequence: Vv14s0081g00240.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA20G36930.1 (Glycine max), 3'ss of exon 6
-acgtttttatttattgtttgtttattat--tttataaaaaaaaatgtgaagattaattgtgtaagtgatactgaaggattctttttccctttttggctgtagGAGCTGGCCGTCATTGTGGCAAGAGGAAGAGACAATTCTATTTTGTGCTATCCTGTTGTTGAAACTATTCACAA
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attgttcaaaaatgttttttatttcttaaaacttaccaattttgtcatgttattta--tgagtttatggaccttacatatt-tttctcccaaaataatgacagGAACTAGCTGTCATTGTGGCGAGAGGCAGAGACAATTCAATTTCATGCTATCCTGTTGTTGAAACTATACATAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaagattaattgtgtaagtgatactgaaggattctttttccctttttggctgtagGAGCTGGCCGTCATTGTGGCAAGAGGAAGAGACAATTCTATTTTGTGCTATCCTGTTGTTGAAACTATTCACAA
gattaat putative branch site (score: 3)
ttctttttcccttttt putative PPT
attcttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
acgtttttatttattgtttgtttattattttataaaaaaaaatgtgaagattaattgtgtaagtgatactgaaggattctttttccctttttggctgtagGAGCTGGCCGTCATTGTGGCAAGAGGAAGAGACAATTCTATTTTGTGCTATCCTGTTGTTGAAACTATTCACAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - -aaaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctgaagg