Sequence
atgc intronic sequence ATGC exonic sequence...agtctattatttgtatgacccattcttcttataaatctgttttctaagattcgtctaattcttgataagtatttctaataatattgctacttattttcagGTATTGGGACACAAGGCAGTCAAATCCAGTGCATACTCAACAACTCCCTGATCGCTGTTATGCTTTTACCGTGAGACATCCTCTGATGGTTGTTGGCACT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0002g09150.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os08g07960.2 (Oryza sativa), 3'ss of exon 5
agtctattatttgtatgacccatt-cttcttataaatctgttttctaagattcgtctaattcttgataagtatttctaataat-attgctac-ttattttcagGTATTGGGACACAAGGCAGTCAAATCCAGTGCATACTCAACAACTCCCTGATCGCTGTTATGCTTTTACCGTGAGACATCCTCTGATGGTTGTTGGCACT
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---gaactttttcttaatctcatcgcagcacataggcctctgttcttgtggttacagtgatctgttctagtcaatccaatactgaccactttgctatttatagGTATTGGGACACAAGGCAATCAAATCCTGTCCATGTTCAGCAACTTCCTGAGCGCTGTTACGCACTTACAGTGAATTATCCCCTTATGATTGTGGGAACT
upper sequence: Vv09s0002g09150.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA08G19260.1 (Glycine max), 3'ss of exon 4
-agtctattatttgtatgacccattcttcttataaatctgttttctaagattcgtctaattcttgataagtatttctaataatattgctacttattttcagGTATTGGGACACAAGGCAGTCAAATCCAGTGCATACTCAACAACTCCCTGATCGCTGTTATGCTTTTACCGTGAGACATCCTCTGATGGTTGTTGGCACT
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tgcaattgtatccttctggttaaatatggt-atgaagcttacaattttgcctgatgtgatacttctgtcctctccgcatgactctttctggctgcttttagATACTGGGACACAAGGCAGTCAAATCCAGTGCACACACAGCAACTCCCAGAGCGCTGCTATGCTATGACAGTGAGACATCCTCTGATGGTTGTTGGCACT
upper sequence: Vv09s0002g09150.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA15G05740.1 (Glycine max), 3'ss of exon 4
agtctattatttgtatgacccattcttcttataaatctgttttctaagattcgtctaattcttgataagtatttctaataatattgctacttattttcagGTATTGGGACACAAGGCAGTCAAATCCAGTGCATACTCAACAACTCCCTGATCGCTGTTATGCTTTTACCGTGAGACATCCTCTGATGGTTGTTGGCACT
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tgtattgtatccttcttattaaatatggtatgaaagctaacaattttgcttgatctgatgcttctgtcctctccacatgagtctttttggctacttttagATACTGGGATACAAGGCAGTCAAATCCAGTGCACACACAGCAACTCCCAGAGCGCTGCTATGCTATGACAGTGAGACATCCTCTGATGGTTGTTGGCACT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aagattcgtctaattcttgataagtatttctaataatattgctacttattttcagGTATTGGGACACAAGGCAGTCAAATCCAGTGCATACTCAACAACTCCCTGATCGCTGTTATGCTTTTACCGTGAGACATCCTCTGATGGTTGTTGGCACT
ttctaat putative branch site (score: 2)
cttattttc putative PPT
taattcttgataagta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agtctattatttgtatgacccattcttcttataaatctgttttctaagattcgtctaattcttgataagtatttctaataatattgctacttattttcagGTATTGGGACACAAGGCAGTCAAATCCAGTGCATACTCAACAACTCCCTGATCGCTGTTATGCTTTTACCGTGAGACATCCTCTGATGGTTGTTGGCACT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - cccattc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttgctac