Sequence
atgc intronic sequence ATGC exonic sequence...tgcatataaccttcatttatttttctcagttgactcagaaaatacttttagtaagataaatggaatatcatgccctgtttgattaataaatgaagtgcagGACGATGCTTCTATTTCATGGAGGAAAAGAAAGAAGCACTTTTTCATTCTGAGTCACTCTGGGAAACCAATATATTCCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g02820.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA12G29450.3 (Glycine max), 3'ss of exon 1
-----tgcatataaccttcatttatttttctcagttgactcagaaaatacttttagtaagataaatggaatatcatgccctgtttgattaataaatgaagtgcagGACGATGCTTCTATTTCATGGAGGAAAAGAAAGAAGCACTTTTTCATTCTGAGTCACTCTGGGAAACCAATATATTCCAG
| | | | |||| | | | | || | ||| ||| | || ||| || |||||||| ||||||||||||| ||| |||||||||| |||||||| ||||||||||||||||| |||||||| ||||| |||||||||| ||||| |||||||||||||| ||
acgtttattttttaaattcaagcaatatgagggcattacactgaagatatctgta--aaggc---tgtaatatcatattctgtttgattaatgaataaagtgcagGATGATGCTTCCATTTCATGGAGGAAAAGGAAGAAGCATTTTTTTGTTCTGAGTCATTCTGGCAAACCAATATATTCTAG
upper sequence: Vv06s0004g02820.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA13G40080.2 (Glycine max), 3'ss of exon 2
tgcatata-accttcatttatttttctcagttgactcagaaaatacttttagtaagata-aatggaatatcatgccctgtttgattaataaatgaagtgcagGACGATGCTTCTATTTCATGGAGGAAAAGAAAGAAGCACTTTTTCATTCTGAGTCACTCTGGGAAACCAATATATTCCAG
|| ||| | || || |||| || ||| | | ||| | | || ||| || |||||||| ||||||||||||| ||| |||||||||| |||||||| ||||||||||||||||| |||||||| ||||| |||||||| | ||||| |||||||||||||| ||
tg-atacagacgtttattttttaaattcaagcaa-taagagggcattacactgaatatatgctgtaatatcatattctgtttgattaatgaataaagtgcagGATGATGCTTCCATTTCATGGAGGAAAAGGAAGAAGCATTTTTTTGTTCTGAGTAATTCTGGCAAACCAATATATTCTAG
upper sequence: Vv06s0004g02820.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT2G28390.1 (Arabidopsis thaliana), 3'ss of exon 1
-------tgcatataaccttcatttatttttctcagttgactcagaaaatacttttagtaagataaatggaa-tatcatgccctgtttgattaataaatgaagtgcagGACGATGCTTCTATTTCATGGAGGAAAAGAAAGAAGCACTTTTTCATTCTGAGTCACTCTGGGAAACCAATATATTCCAG
| | | || || | | || |||| | || | | || | || |||||| | | | | ||| |||||| || |||||| |||||||||| |||||||| || || |||||||| || ||||| |||||| |||| || ||||| |||||||||||
aatgtttagtgagtgatatttatgaactgatcaatattgatt---aacttctcatcagc--ggtagatggaactctgagaacacattt--ttaatatg-aaaacgcagGATGATGCTTCTACGTCATGGAGAAAGAGGAAGAAGCATTTCTTCATACTGAGTAACTCAGGCAAACCGATATATTCCAGMapped 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|110699831|gb|EE077188.1|EE077188EST: TATCGGATTTACAGCAATCGTGGGTTCCAGGGAAGCGTCACGTCGATGAG GACGATGCTTCTATTTCATGGAGGAAAAGAAAGAAGCACTTTTTCATTCTG
genomic: TATCGGATTTACAGCAATCGTGGGTTCCAGGGAAGCGTCACGTCGATGAGgtgagttcag ... tgaagtgcagGACGATGCTTCTATTTCATGGAGGAAAAGAAAGAAGCACTTTTTCATTCTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttagtaagataaatggaatatcatgccctgtttgattaataaatgaagtgcagGACGATGCTTCTATTTCATGGAGGAAAAGAAAGAAGCACTTTTTCATTCTGAGTCACTCTGGGAAACCAATATATTCCAG
gattaat putative branch site (score: 3)
tttgattaataaatga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgcatataaccttcatttatttttctcagttgactcagaaaatacttttagtaagataaatggaatatcatgccctgtttgattaataaatgaagtgcagGACGATGCTTCTATTTCATGGAGGAAAAGAAAGAAGCACTTTTTCATTCTGAGTCACTCTGGGAAACCAATATATTCCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - accttca
- - - - - - - - - - - - - - - - - - agaaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - aagataa