Sequence
atgc intronic sequence ATGC exonic sequencegtaataaatgagaaatattgacttccaactttacattacattcatttattgatttattctttccatatatggtgtggtgtagGTAAGGACTTTACCTTCCAAGTTGGGGTAGGACATTTCTATCACATTTACTACGAGGGTTGCTTAACAAACTTTGAGATCGGAGACGAGGGAGAAGAAGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0053g00460.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os12g16220.3 (Oryza sativa), 3'ss of exon 2
---------------gtaataaatgagaaatattgacttccaactttacattac-attcatttattgatttattctttcca---tatatggtgtggtgtagGTAAGGACTTTACCTTCCAAGTTGGGGTAGGACATTTCTATCACATTTACTACGAGGGTTGCTTAACAAACTTTGAGATCGGAGACGAGGGAGAAGAAGC
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agctattttcttttttttaaataccattactcatggggttcaatttcaaacaattattgacctaactatcattgATATGCAATTTTTTTAATGCAA-GCAGATATGCAATTTGCTTTTCAAGTGGGAATAACACATTTCTACCACATTTTCTACGAGGGTTGCTTAACAAACTTTGACATTGGTGACAATGGAGCCGAAGC
upper sequence: Vv17s0053g00460.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os12g16240.1 (Oryza sativa), 3'ss of exon 2
---------gtaataaatgagaaatattgacttccaactttacattacattcatttattgatttattctttc---catatatggtgtggtgt------agGTAAGGACTTTACCTTCCAAGTTGGGGTAGGACATTTCTATCACATTTACTACGAGGGTTGCTTAACAAACTTTGAGATCGGAGACGAGGGAGAAGAAGC
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tttggctatgttccttttttaatatcattactcaaggggttaaatttcaaacaatgattaacctaacttatcattgatatgcaattttttatgcaagcagATACAGATTTTGCTCATCAAGTGGGAGTAACACATTTCTACCACATTTTCTACGAAGGTTGCTTAACAAACTTCGACATTGGTGACAATGGAGCCGAAGC
upper sequence: Vv17s0053g00460.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA09G34470.1 (Glycine max), 3'ss of exon 3
------------------gtaataaatgagaaatattgacttccaactttacat-tacattcatttattgatttattctttccatatatggtgtggtgtagGTAAGGACTTTACCTTCCAAGTTGGGGTAGGACATTTCTATCACATTTACTACGAGGGTTGCTTAACAAACTTTGAGATCGGAGACGAGGGAGAAGAAGC
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gtaaaaaaaatacaccccgaagagaaagaactgaattatttgactaattcattcatatcatcaacaaaaaaaaaatgactttgattaatg-tgagttacagGTTTGGACTATGCAGCTCAAGTGGGGGTGGGGCATTTCTATCATATTTTCTATGAAGGTTGTTTGACAAACTTTGAAATAGGAGAAGGTGGAGAAGAAGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.actttacattacattcatttattgatttattctttccatatatggtgtggtgtagGTAAGGACTTTACCTTCCAAGTTGGGGTAGGACATTTCTATCACATTTACTACGAGGGTTGCTTAACAAACTTTGAGATCGGAGACGAGGGAGAAGAAGC
tattgat putative branch site (score: 3)
attacattcatttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaataaatgagaaatattgacttccaactttacattacattcatttattgatttattctttccatatatggtgtggtgtagGTAAGGACTTTACCTTCCAAGTTGGGGTAGGACATTTCTATCACATTTACTACGAGGGTTGCTTAACAAACTTTGAGATCGGAGACGAGGGAGAAGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC