Sequence
atgc intronic sequence ATGC exonic sequence...gggaaaagtgatctgagctgtttgccttccaagcactcattgcaagtgatttcagtattcaatgctatattttggctgacatttcaaaattttattttagGAAGCTTTAAAATCGTGCCTCATCGTCAATGCTCCTTTGATATATAGAGCTGCTTCTCGAGTTCCCTTTTCTGTTCTCAAGTATGCTATGACCCTTGATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0023g00680.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA18G47790.1 (Glycine max), 3'ss of exon 2
gggaaaagtgatctgagctgtttgccttccaagcactcattgcaagtgatttcagtattcaatgctatattttggctg---acatttcaaaattttattt-tagGAAGCTTTAAAATCGTGCCTCATCGTCAATGCTCCTTTGATATATAGAGCTGCTTCTCGAGTTCCCTTTTCTGTTCTCAAGTATGCTATGACCCTTGATG
| || | ||| ||||| | | | | || | | | ||||| | || | || |||| | |||| ||| |||| || ||| ||| || | |||||||| |||||||| | ||||||||||| || ||||||||||| ||||| ||||||||||||||||||||||
--gcaactggttctacaatgtttatggctttttgatagacctcggtggggttgattgat--atgcttttattcagatgcatgcattgctttgttttgtttgcagGATGCGCAGAAAGAGTGTCTTCTTGTCAATGCACCTTTGATTTGTAGAGCTGCTTTGCGTGTTCCCTTTTCCGTTCTTAAGTATGCTATGACCCTTGATG
upper sequence: Vv04s0023g00680.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA09G38520.1 (Glycine max), 3'ss of exon 2
gggaaaagtgatctgagctgtttgc--cttccaagcactcattgcaagtgatttcagtattcaatgctatattttggctgacatttcaaaattttattt-tagGAAGCTTTAAAATCGTGCCTCATCGTCAATGCTCCTTTGATATATAGAGCTGCTTCTCGAGTTCCCTTTTCTGTTCTCAAGTATGCTATGACCCTTGATG
| || || ||| ||||| ||| | | ||| ||| || | | ||| | ||| | |||| ||| |||| || ||| ||| || | |||||||| |||||||| | ||||||| ||| || ||||||||||||||||| |||||||| |||||||||||||
-gcaactatg-tctacaatgtttatggctttttgatagaccttg-gtgtggttgattggtatgcttttattcacatacatgcatggctttgttttgtttgcagGATGCACAGAAAGAGTGTCTTCTTGTCAATGCACCTTTGATTTGTAGAGCTTCTTTGCGTGTTCCCTTTTCTGTTCTTAAGTATGCCATGACCCTTGATG
upper sequence: Vv04s0023g00680.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT3G47390.2 (Arabidopsis thaliana), 3'ss of exon 5
gggaaaagtgatctgagctgtttgccttccaagcactcattgcaagtgatttcagtattcaatgctatattttggctgacatttcaaaattttattttagGAAGCTTTAAAATCGTGCCTCATCGTCAATGCTCCTTTGATATATAGAGCTGCTTCTCGAGTTCCCTTTTCTGTTCTCAAGTATGCTATGACCCTTGATG
| | || |||| | ||| | ||| | | | | | | | || || | ||||| | |||| |||| ||| |||||||| || | || |||||||||||||| |||||||| |||||||||||| || |||||||| |||||||| ||||| |||||||
---------------gtatctatgtcttcttactcttcaatt----tgaagttaattgttaggattctgtt--aactaaatgttcaagttcttat---agGATGCTCGGAAATCGTGTCTTCTTGTGAATGCTCCTTTGATTCATAGAGCTTGTTCTCGAGTTCCGTTCTCTGTTCTTAAGTATGCCATGACTCTTGATGMapped 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|71883545|gb|DT032600.1|DT032600EST: GACTGCAGGTGGATGTTCTTGGAGAGGATCTGAAAAGTAAAATTGTTGAG GAAGCTTTAAAATCGTGCCTCATCGTCAATGCTCCTTTGATATATAGAGCT
genomic: GACTGCAGGTGGATGTTCTTGGAGAGGATCTGAAAAGTAAAATTGTTGAGgtggtgacaa ... tttattttagGAAGCTTTAAAATCGTGCCTCATCGTCAATGCTCCTTTGATATATAGAGCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtgatttcagtattcaatgctatattttggctgacatttcaaaattttattttagGAAGCTTTAAAATCGTGCCTCATCGTCAATGCTCCTTTGATATATAGAGCTGCTTCTCGAGTTCCCTTTTCTGTTCTCAAGTATGCTATGACCCTTGATG
ggctgac putative branch site (score: 3)
ttttatttt putative PPT
tgacatttcaaaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gggaaaagtgatctgagctgtttgccttccaagcactcattgcaagtgatttcagtattcaatgctatattttggctgacatttcaaaattttattttagGAAGCTTTAAAATCGTGCCTCATCGTCAATGCTCCTTTGATATATAGAGCTGCTTCTCGAGTTCCCTTTTCTGTTCTCAAGTATGCTATGACCCTTGATG
gggaaaa
- - - - - - - - -ctgtttg
- - - - - - - - - - - - ccttcca
- - - - - - - - - - - - - - - - -cactcat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caatgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctgacat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tcaaaat