Sequence
atgc intronic sequence ATGC exonic sequencegtaagtgtacttcgattgctgaatattgtcttgaatacctctatttattttaaaattaactcgagtcaccgcgttttggtgttttatccagGTCCCTGCAGATGGAATCTTAATTACTGGTCATTCTCTTGCAATTGATGAATCTAGCATGACTGGTGAAAGCAAGATT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0018g02130.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: LOC_Os02g08018.1 (Oryza sativa), 3'ss of exon 6
gtaagtgtacttcgattgctgaatattgtcttgaatacctctatttattttaaaattaactcgagtcaccgcgt--tttggtgttttatccagGTCCCTGCAGATGGAATCTTAATTACTGGTCATTCTCTTGCAATTGATGAATCTAGCATGACTGGTGAAAGCAAGATT
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gtaagattatgtaaatccatgcattctgatttgatttatgttctatgctgtttgtatttctgagattataatgaaactaaatacaccttttagGTCCCGGCTGATGGTGTTTTGGTTAGTGGTCATTCTCTTGCCATTGATGAATCCAGTATGACTGGGGAAAGCAAGATC
upper sequence: Vv09s0018g02130.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA07G00630.1 (Glycine max), 3'ss of exon 11
gtaagtgtacttcgattgctgaatattgtcttgaatacctctatttattttaaaattaactcgagtcaccg--cgttttggtgttttatccagGTCCCTGCAGATGGAATCTTAATTACTGGTCATTCTCTTGCAATTGATGAATCTAGCATGACTGGTGAAAGCAAGATT
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-----------gtgagt-ttgtatggtattttgagtttgtctggaaattgagcagtattttttgttcaccgattactctatgggcatactcagGTTCCTGCTGATGGAGTATTAATCACGGGCCATTCACTTGCAATTGATGAATCCAGTATGACTGGTGAAAGCAAGATT
upper sequence: Vv09s0018g02130.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA13G44990.1 (Glycine max), 3'ss of exon 10
-------------gtaagtgtacttcgattgctgaatattgtcttgaatacctctatttattttaaaattaactcgagtcaccgcgttttgg-tgttttatccagGTCCCTGCAGATGGAATCTTAATTACTGGTCATTCTCTTGCAATTGATGAATCTAGCATGACTGGTGAAAGCAAGATT
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aacatgtgctgtggtgggaaaaatt-gattttagtgt-ttaaccaaacaagcactgactagttttctatattctatgtgaactactctatggatgctct---cagGTTCCTGCCGATGGAGTTGTAATCACTGGTCACTCTCTTGCCATTGATGAATCGAGTATGACTGGTGAAAGCAAGATT
upper sequence: Vv09s0018g02130.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA08G23760.1 (Glycine max), 3'ss of exon 11
gtaagtgtacttcgattgctgaatattgtcttgaatacctctatttattttaaaattaactcgagtcaccg--cgttttggtgttttatccagGTCCCTGCAGATGGAATCTTAATTACTGGTCATTCTCTTGCAATTGATGAATCTAGCATGACTGGTGAAAGCAAGATT
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-----------gtgagt-ttgtatggcattttgagtttgtctgtaaattgagcagttttctttgttcaccgattactctatgggcatacttagGTTCCTGCTGATGGAGTATTAATCACGGGCCATTCACTTGCAATTGATGAATCCAGTATGACTGGTGAAAGCAAGATT
upper sequence: Vv09s0018g02130.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA15G00340.1 (Glycine max), 3'ss of exon 9
------gtaagtgtacttcgattgctgaatattgtcttgaatacctctatttattttaaaattaactcgagt-caccgcgttttggtgttt-----tatccagGTCCCTGCAGATGGAATCTTAATTACTGGTCATTCTCTTGCAATTGATGAATCTAGCATGACTGGTGAAAGCAAGATT
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acatttgaacatgtgctgtggtgggagaa-attgattttagtg--tttaaccaaacaaggactgactagttttctatgtgaactactatatggatgttctcagGTTCCTGCTGATGGAGTTGTAATCACTGGTCACTCGCTTGCCATTGATGAATCGAGTATGACTGGTGAAAGCAAGATT
upper sequence: Vv09s0018g02130.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: AT3G21180.1 (Arabidopsis thaliana), 3'ss of exon 8
gtaagtgtacttcgattgctgaatattgtcttgaatacctctatttattttaaaattaactcgagtcaccgcgttttggtgt-tttatccagGTCCCTGCAGATGGAATCTTAATTACTGGTCATTCTCTTGCAATTGATGAATCTAGCATGACTGGTGAAAGCAAGATT
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gtaggtatactttgtcttt---atattccatctaatggct----tcagagttaaatgactatatggccttatttattgttgtattcatatagGTCCCTGCGGATGGAGTGCTAATTAGTGGTCATTCTCTTGCTATTGATGAATCTAGCATGACCGGTGAAAGCAAGATT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acctctatttattttaaaattaactcgagtcaccgcgttttggtgttttatccagGTCCCTGCAGATGGAATCTTAATTACTGGTCATTCTCTTGCAATTGATGAATCTAGCATGACTGGTGAAAGCAAGATT
aattaac putative branch site (score: 2)
ttttatcc putative PPT
tatttattttaaaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtgtacttcgattgctgaatattgtcttgaatacctctatttattttaaaattaactcgagtcaccgcgttttggtgttttatccagGTCCCTGCAGATGGAATCTTAATTACTGGTCATTCTCTTGCAATTGATGAATCTAGCATGACTGGTGAAAGCAAGATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA