Sequence
atgc intronic sequence ATGC exonic sequence...gaactatgatgcatgccaacctattacattacaaatgggtttgaaatggagttaattttcttaatggttttctaactatcctacttttcactattgtcagTGCACTGGTCGGTCTATTTTTCCCTGCTGTAACGGGAATTATGGCAGGTTCAAATCGCTCTGCTTCATTGAGAGACACTCAACGTTCAATTCCTGTTGGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0003g04530.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: LOC_Os01g19850.1 (Oryza sativa), 3'ss of exon 8
-----------------------------------gaactatgatgcatgcc----aacctattacattacaaatgggtttgaa--atggagttaattttcttaatg---gttttctaactatcctacttttcactattgtcagTGCACTGGTCGGTCTATTTTTCCCTGCTGTAACGGGAATTATGGCAGGTTCAAATCGCTCTGCTTCATTGAGAGACACTCAACGTTCAATTCCTGTTGGA
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gtctatatattgggattttaagtctgtcctccttttgttgttgatacttgtttttaagatcctctaattacttgcaattttcatttatcgattttgtagattcagtatgcacttgctaac-attctttgttttgttctt-tcagTGCTTTGTTAGGTCTCTACTTCCCAGCAGTTACAGGAATCATGGCTGGTTCAAATCGGTCTGCTTCACTGAAAGACACACAACGTTCAATACCAATTGGA
upper sequence: Vv10s0003g04530.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G113276_T02 (Zea mays), 3'ss of exon 3
gaactatgatgcatgccaacctattacattacaaatgggtttgaaatggagttaattttcttaatggttttctaactatcctacttttc--acta--ttgtcagTGCACTGGTCGGTCTATTTTTCCCTGCTGTAACGGGAATTATGGCAGGTTCAAATCGCTCTGCTTCATTGAGAGACACTCAACGTTCAATTCCTGTTGGA
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---ttacctttt-tgctgcatttttaaatgcacggcagtttgcacattgccttatgtatgtgaaactttattgtgctaacattttttttgtatcaatctttcagTGCTCTGGTAGGTCTCTTTTTCCCAGCGGTCACTGGAATTATGGCTGGCTCAAACCGATCTGCCTCACTGAAAGATACACAGCGTTCAATACCAATCGGC
upper sequence: Vv10s0003g04530.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA15G22520.1 (Glycine max), 3'ss of exon 8
gaactatgatgcatgccaacctattacattacaaatgggtttgaaatggagttaattttcttaatggttttctaactatcctacttttcactattgtcagTGCACTGGTCGGTCTATTTTTCCCTGCTGTAACGGGAATTATGGCAGGTTCAAATCGCTCTGCTTCATTGAGAGACACTCAACGTTCAATTCCTGTTGGA
| ||||| | || || | || | | | |||| | || | | |||| ||||| | || | | | | |||| || |||| || || |||||||||||||| |||||||| ||||||||||| ||||| || | || ||||||| ||||| | |||||||||||||||
cattcatgattaaagcatgttccctagagcccattttgttgaaaaatttgctagtttatgattcatattttttaactgtaatattcctttttcctcccagTTCATTGGTTGGCCTCTTTTTCCCTGCTGTGACGGGAATAATGGCAGGTTCTAATCGATCATCCTCTCTGAGAGATACTCAGCAATCAATTCCTGTTGGA
upper sequence: Vv10s0003g04530.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT1G30450.1 (Arabidopsis thaliana), 3'ss of exon 9
---------------gaactatgatgcatgccaacctattacattacaaatgggtttgaaatg--gagttaattttcttaat--ggttt-----------tctaactatcctacttttca-ctattgtcagTGCACTGGTCGGTCTATTTTTCCCTGCTGTAACGGGAATTATGGCAGGTTCAAATCGCTCTGCTTCATTGAGAGACACTCAACGTTCAATTCCTGTTGGA
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gtgagtaacttccagaaattgtgttgctgatgatagaaaaactctagttatggttttaagttaacgaaataattttatctgttcagtttttactctcaaatttatttaccgttcttttcggttgttttcagTGAGCTGGTGGGTCTATTTTTTCCTGCTGTAACAGGAATTATGGCTGGTTCAAATCGATCAGCTTCACTTAAAGATACACAAAAATCAATTCCTGTTGGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atggagttaattttcttaatggttttctaactatcctacttttcactattgtcagTGCACTGGTCGGTCTATTTTTCCCTGCTGTAACGGGAATTATGGCAGGTTCAAATCGCTCTGCTTCATTGAGAGACACTCAACGTTCAATTCCTGTTGGA
ttctaac putative branch site (score: 1)
tcctacttttcact putative PPT
ttaattttcttaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gaactatgatgcatgccaacctattacattacaaatgggtttgaaatggagttaattttcttaatggttttctaactatcctacttttcactattgtcagTGCACTGGTCGGTCTATTTTTCCCTGCTGTAACGGGAATTATGGCAGGTTCAAATCGCTCTGCTTCATTGAGAGACACTCAACGTTCAATTCCTGTTGGA
- - - - atgcatg
- - - - - - - -ccaacct
- - - - - - - - - - - - - - - - - - gggtttg
- - - - - - - - - - - - - - - - - - - - - -aaatgga