Sequence
atgc intronic sequence ATGC exonic sequence...agagaaaattacaagacttttctcttgattgttgtgttgattcaattatgttttattgaaacctctatgtaggcatcttcattctatttgattttggcagGTCAAACAAATGTTAATTGCACTTCTGTGCGAATCTGAAATGAAGTTGGCTGATGAAACCATCGAGATAATACTTGATAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0236g00150.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA05G05580.1 (Glycine max), 3'ss of exon 6
agagaaaatta-caagacttttctcttgattgttgtgttgattcaattatgttttattgaaacctctatg----taggcatcttcattctatttgattttggcagGTCAAACAAATGTTAATTGCACTTCTGTGCGAATCTGAAATGAAGTTGGCTGATGAAACCATCGAGATAATACTTGATAAG
| | | || || | | | | |||| | ||||| | || | | | |||| | | || || ||| || || | | || || |||||||| |||||||||||||||||||| | || || || ||||||||||| ||||| ||| || | ||| ||||| |||
ggtgtattttgtcatggcatctatcttca-----gtgtttgtgcactcctatcctattaattttttagtgggcttattcatttttcttttggtgatttctgacagGTCAAGCAAATGTTAATTGCACTTCTTTTTGAGTCGGATATGAAGTTGGCAGATGATGTCATAGAAACAATTCTTGACAAG
upper sequence: Vv02s0236g00150.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT4G17615.2 (Arabidopsis thaliana), 3'ss of exon 5
----------------agagaaaattacaagacttttctcttgattgttgtgttgat--tcaattatgtttta-ttgaaacctctatgtaggcatcttcattctatttgattt--tggcagGTCAAACAAATGTTAATTGCACTTCTGTGCGAATCTGAAATGAAGTTGGCTGATGAAACCATCGAGATAATACTTGATAAG
|| | ||| || | | | ||| |||| | | | || ||||| || | | || | || ||| | | | || |||| | | ||||||||| |||||||| || || ||||| ||||||||||||||||| |||||||||||||||| ||||||||||| ||||||
gtaatactaacttgcaagctttgaatactagtcatgatagatctttgccatgttcttgagtattcatcttttacttaataactttgca-agaaatcgttaatgaatgtgatatatttgcagGTCAAGCAAATGTTGATCGCGCTTCTCTGCGAATCTGAAATGAAACTGGCTGATGAAACCATAGAGATAATACTCGATAAG
upper sequence: Vv02s0236g00150.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT5G47100.1 (Arabidopsis thaliana), 3'ss of exon 6
-------------agagaaaattacaagacttttctct-tgattgttgtgttga-----ttca--attatgttttattgaa-acctctatgtaggcatcttcattctatttgattttggcagGTCAAACAAATGTTAATTGCACTTCTGTGCGAATCTGAAATGAAGTTGGCTGATGAAACCATCGAGATAATACTTGATAAG
| | | ||| | || | || ||| | | |||| |||||| || | | | || || ||| ||| | | ||| | ||||||||||| || || ||||| ||||||||||| ||||||||||||||||| |||||||||| || || ||||| ||||||||| ||
gtaaacaatggtcctatatcttcacattccattcccaaacaatctatgtttcaaagactttcagtattatggattctgcatcatctataagtaatcataattgtg-tatgcgtttttggcagGTGAAGCAGATGTTGATTGCACTTCTCTGCGAATCTGAAATGAAACTGGCTGATGATACAATAGAGATGATACTTGATCAGMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|45771421|gb|CN007273.1|CN007273EST: CATTCAAGCTCTATGATCTGGATAGCACAGGATTCATTGAGCGGCAAGAG GTCAAACAAATGTTAATTGCACTTCTGTGTGAATCTGAAATGAAGTTGGCT
genomic: CATTCAAGCTCTATGATTTGGATAGCACAGGATTCATTGAGCGGCAAGAGgtaccttgat ... attttggcagGTCAAACAAATGTTAATTGCACTTCTGTGCGAATCTGAAATGAAGTTGGCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttatgttttattgaaacctctatgtaggcatcttcattctatttgattttggcagGTCAAACAAATGTTAATTGCACTTCTGTGCGAATCTGAAATGAAGTTGGCTGATGAAACCATCGAGATAATACTTGATAAG
atttgat putative branch site (score: 5)
attctatttgatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agagaaaattacaagacttttctcttgattgttgtgttgattcaattatgttttattgaaacctctatgtaggcatcttcattctatttgattttggcagGTCAAACAAATGTTAATTGCACTTCTGTGCGAATCTGAAATGAAGTTGGCTGATGAAACCATCGAGATAATACTTGATAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- agaaaat
- - - - - acaagac
- - - - - - - - - - - - - - -tgttgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - tgaaacc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gtaggca