Sequence
atgc intronic sequence ATGC exonic sequence...ttaattttgtattatatttaatgaactatttatttagttgaacctatctatgttgatgtagttgaatattaattatttgttttcccttatgcctttgcagTCAAGTATACATGGCCAGAGAAATCAAAACAGGAGAAATTGTTGCCTTAAAAAGGATACGCATGGAAAATGAAAGAGAAGGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0141g00280.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT5G10270.1 (Arabidopsis thaliana), 3'ss of exon 1
--------------------------------------------------------------------------------ttaattttgtatt-atatttaatgaactatttatttagttgaacctatctatgttgatgtagttgaatattaattatttgttttcccttatgcctttgcagTCAAGTATACATGGCCAGAGAAATCAAAACAGGAGAAATTGTTGCCTTAAAAAGGATACGCATGGAAAATGAAAGAGAAGGG
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gttattcactttctctttaattcaatttcactctttggttattcaaaaggcttaatttttacttgggattgataaattattggcctttgaagcgatttttgattgtatgattaggcttttacaa-tgcctatgttgtgttgcttttaggagatttgattgttgttgttt-tgctgttgcagTCAAGTTTACATGGCTAAAGAAATCAAAACTGGTGAAATTGTGGCTCTCAAAAAGATACGTATGGACAATGAAAGAGAAGGG
upper sequence: Vv07s0141g00280.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT5G64960.2 (Arabidopsis thaliana), 3'ss of exon 1
ttaattttgtattatatttaatgaactatttatttagttgaacctatcta--tgttgatgtagttgaatattaattatttgttttcccttatgcctttgcagTCAAGTATACATGGCCAGAGAAATCAAAACAGGAGAAATTGTTGCCTTAAAAAGGATACGCATGGAAAATGAAAGAGAAGGG------------------
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-tatatatatat-atatatatatatatatatgttgcaataaacttctgaagctgtctcttttgatggtgtttagattcatatattaaaatttggttttgcagCCAAGTGTACATGGCTAAAGAAATTAAAACTGGTGAAATCGTGGCTCTGAAAAAGATCCGTATGGACAATGAAAGAGAAGGGGTAAGCTACATTTGAACT
upper sequence: Vv07s0141g00280.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT5G64960.1 (Arabidopsis thaliana), 3'ss of exon 1
ttaattttgtattatatttaatgaactatttatttagttgaacctatcta--tgttgatgtagttgaatattaattatttgttttcccttatgcctttgcagTCAAGTATACATGGCCAGAGAAATCAAAACAGGAGAAATTGTTGCCTTAAAAAGGATACGCATGGAAAATGAAAGAGAAGGG
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-tatatatatat-atatatatatatatatatgttgcaataaacttctgaagctgtctcttttgatggtgtttagattcatatattaaaatttggttttgcagCCAAGTGTACATGGCTAAAGAAATTAAAACTGGTGAAATCGTGGCTCTGAAAAAGATCCGTATGGACAATGAAAGAGAAGGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atctatgttgatgtagttgaatattaattatttgttttcccttatgcctttgcagTCAAGTATACATGGCCAGAGAAATCAAAACAGGAGAAATTGTTGCCTTAAAAAGGATACGCATGGAAAATGAAAGAGAAGGG
tattaat putative branch site (score: 2)
tttgttttcccttatg putative PPT
atgtagttgaatatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttaattttgtattatatttaatgaactatttatttagttgaacctatctatgttgatgtagttgaatattaattatttgttttcccttatgcctttgcagTCAAGTATACATGGCCAGAGAAATCAAAACAGGAGAAATTGTTGCCTTAAAAAGGATACGCATGGAAAATGAAAGAGAAGGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - -aatgaac