Sequence
atgc intronic sequence ATGC exonic sequencegtagtgacatattgattttaacctcagaaagttgggtttcagtttctaattagcatttgcatctctattttgttctttctttttatattttcaacttttaatgctttatttcgtgggtgacagATGCTTTGTGAAGAACGGGGTTTCTTTCTAGAAATAGCTGATATAATTAGAGGGATGGGATTGACCATCCTGAAAGGGGTGATGGAAACTCGGAATGACA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0009g00440.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA11G18290.1 (Glycine max), 3'ss of exon 9
gtagtgacatattgattttaacctcagaaagttgggtttcagtttctaattagcatttgcatctctattttgttctttctttttatattttcaacttttaatgctttatttcgtgggtg--acagATGCTTTGTGAAGAACGGGGTTTCTTTCTAGAAATAGCTGATATAATTAGAGGGATGGGATTGACCATCCTGAAAGGGGTGATGGAAACTCGGAATGACA
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-----------------------gtaatgagtgatgcttca--taattatttttaaatacacttatcccttgaatgtatttgtattggctctaatccattgtg-tttacttggttattcttgcagATGCTTTGTGAGGAACGGGGTTTCTTTCTGGAAATAGCCGACTTAATCAGAGGATTAGGTTTAACAATCTTGAAGGGGGTCATGGAAGCTCGCAATGACA
upper sequence: Vv06s0009g00440.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA12G31460.1 (Glycine max), 3'ss of exon 8
gtagtgacatattgattttaacctcagaaagttgggtttcagtttctaattagcatttgcatctctattttgttctttctttttatattttcaacttt-taatgc-tttatttcgtgggt--gacagATGCTTTGTGAAGAACGGGGTTTCTTTCTAGAAATAGCTGATATAATTAGAGGGATGGGATTGACCATCCTGAAAGGGGTGATGGAAACTCGGAATGACA
|| || || ||| | || ||| | || | || || ||| || | |||| ||| ||| || | |||||||||||||||| ||||| ||||||||| | ||||||||||| |||| ||||| | || || |||||| | || ||||| |||||| ||| |||||||
-----------------------------------------gtagtggat--gctttttaaacttcttttggccctaatatatttctttatcacctctataatatgtttgtttggttattctgacagATGCTTTGTGAGGAACGAGGTTTCTTTTTGGAAATAGCTGACTTAATCAGAGGATTAGGTTTAACCATCTTAAAGGGGGTAATGGAAGCTCACAATGACA
upper sequence: Vv06s0009g00440.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA12G09990.1 (Glycine max), 3'ss of exon 3
gtagtgacatattgattttaacctcagaaagttgggtttca---gtttctaattagcatttgcatctctattttgttctttctttttatattttcaacttttaatgctttatttcgtgggtgacagATGCTTTGTGAAGAACGGGGTTTCTTTCTAGAAATAGCTGATATAATTAGAGGGATGGGATTGACCATCCTGAAAGGGGTGATGGAAACTCGGAATGACA
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-----------------------gtaataagtgatgcttcataattttttaaaatacatttattcctcaaatggatttgtgttggctctaacctgttgtgtttgctcggttattcttg-----cagATGCTTTGTGAGGAATGCGGTTTCTTTCTGGAAATAGCTGACTTAATCAGAGGATTAGGTTTAACCATCTTGAAGGGAGTCATGGAAGCTCGCAATGACA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttgttctttctttttatattttcaacttttaatgctttatttcgtgggtgacagATGCTTTGTGAAGAACGGGGTTTCTTTCTAGAAATAGCTGATATAATTAGAGGGATGGGATTGACCATCCTGAAAGGGGTGATGGAAACTCGGAATGACA
ttttaat putative branch site (score: 3)
tttctttttatatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagtgacatattgattttaacctcagaaagttgggtttcagtttctaattagcatttgcatctctattttgttctttctttttatattttcaacttttaatgctttatttcgtgggtgacagATGCTTTGTGAAGAACGGGGTTTCTTTCTAGAAATAGCTGATATAATTAGAGGGATGGGATTGACCATCCTGAAAGGGGTGATGGAAACTCGGAATGACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA