Sequence
atgc intronic sequence ATGC exonic sequence...tttttattatgaacgtgtagctcaaggcgtgatttttatttatatcaccataaaagtcttctcttcattttcaaggacaaactgacatttgattttgtagGTTTCGCGCCACCTCTTTAGATGGACCAAAGAAGTGGTATATGCAGATTATTATGAGCGCGCCCTGACAAATGGTGTTTTGAGCATCCAAAGAGGAACAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g01770.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os02g10190.1 (Oryza sativa), 3'ss of exon 7
tttttattatgaacgtgtagctcaaggcgtgatttttatttatatcaccataaaagtcttctcttcattttcaa-ggacaaactgacatttgattttgtagGTTTCGCGCCACCTCTTTAGATGGACCAAAGAAGTGGTATATGCAGATTATTATGAGCGCGCCCTGACAAATGGTGTTTTGAGCATCCAAAGAGGAACAG
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--------------gttcacaatatcaaaccactctcctgaacatt-caatctctctctctctctctctctcaatgggttcaatgcaatcta---ctgcagGTTTCTCGCAACCTATTCAGATGGACAAAGGAATTATCATATGCAGACTATTATGAAAGGGCACTGATAAATGGTGTTTTAAGCATCCAAAGAGGGACTG
upper sequence: Vv06s0004g01770.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA15G03770.1 (Glycine max), 3'ss of exon 7
tttttattatgaacgtgtagctcaaggcgtgatttttatttatatcaccataaaagtcttctcttcattttcaaggacaa-actgacatttgattttgtagGTTTCGCGCCACCTCTTTAGATGGACCAAAGAAGTGGTATATGCAGATTATTATGAGCGCGCCCTGACAAATGGTGTTTTGAGCATCCAAAGAGGAACAG
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tgcacatataacacttgaatatttgtaaataaaccttgatt-tattatcttgaagcttttacattgtcctctaagtacaagaaagaaaaacaattttccagGTTTCACGCCACTTGTTTACATGGACCAAAAAAGTATCATATGCAGATTATTATGAGCGTGCCTTAACAAATGGTGTATTAAGCATTCAAAGAGGAACAG
upper sequence: Vv06s0004g01770.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA11G14020.1 (Glycine max), 3'ss of exon 7
tttttattatgaacgtgtagctcaaggcgtgatttttatttatatcaccataaaagtct---tctcttcattttcaaggacaaactgacatttgatt-ttgtagGTTTCGCGCCACCTCTTTAGATGGACCAAAGAAGTGGTATATGCAGATTATTATGAGCGCGCCCTGACAAATGGTGTTTTGAGCATCCAAAGAGGAACAG
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---ttatcacacagtaattcatcgctgcatgttcttcatttacatctgtatgtgtttgtgattgtttccattatcttag-cacacaaaaataaaatgatttcagGTTTCGCGCCACCTGTTTAGATGGACCAAAGAAGTCTCTTATGCAGACTATTACGAGCGCGCCTTAACCAATGGTGTGCTCAGCATTCAAAGAGGAACAG
upper sequence: Vv06s0004g01770.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA12G05980.1 (Glycine max), 3'ss of exon 7
--------------------------------------------------------------------------tttttattatgaacgtgtagctcaaggcgtgatttttatttatatcaccataaaagtcttctcttcattttcaaggacaaactgacatttgatt-ttgtagGTTTCGCGCCACCTCTTTAGATGGACCAAAGAAGTGGTATATGCAGATTATTATGAGCGCGCCCTGACAAATGGTGTTTTGAGCATCCAAAGAGGAACAG
||||| ||| | | || | ||||| | | | ||| | ||||||||| || || | || || || |||||||||| ||||| |||||||||||||||||||| |||||||| ||||||||||| ||| | || |||||||| | ||||| |||||||||||||
gtacaaccaatcattcatcattttattagctctttaggtaataatgcttaggaagttaaaaatgtgtacatgaattttttttaatagttagaagagagaaaactgattatcacatggtaattcatcgctccatgttcttcatttgtcttagcacacaaaaataaaatgatttcagGTTTCGCGTCACCTGTTTAGATGGACCAAAGAAGTCTCTTATGCAGACTATTATGAGCGTGCCTTAACCAATGGTGTGCTCAGCATTCAAAGAGGAACAG
upper sequence: Vv06s0004g01770.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA11G14000.1 (Glycine max), 3'ss of exon 8
tttttat-tatgaacgtgtagctcaagg--cgtgatttttatttatatcaccataaaagtcttctcttcattttcaaggacaaactgacatttgattttgtagGTTTCGCGCCACCTCTTTAGATGGACCAAAGAAGTGGTATATGCAGATTATTATGAGCGCGCCCTGACAAATGGTGTTTTGAGCATCCAAAGAGGAACAG
|||| | | ||| | || | | | |||| | ||| ||| | ||| || | | | || ||||| | | | ||||| |||||||||||||||| |||| ||||||||||||||| |||||||| ||||| || || ||| |||| |||||||| | ||||| ||||||||||| |
ttttcacatggtaactcatcactacatgttcacaatttatgtttgtatgcgtttgtgagtatttccattgtcttagcacacaaaaataaaat-gatttc--agGTTTCGCGCCACCTGTTTAAATGGACCAAAGAAGTCTCTTATGCAGACTATTACGAACGTGCCTTGACCAATGGTGTGCTCAGCATTCAAAGAGGAACCG
upper sequence: Vv06s0004g01770.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA12G05970.1 (Glycine max), 3'ss of exon 12
tttttattatgaacgtgtagctcaaggcgtgatttttatttatatcaccataaaagtcttctcttcattttcaaggacaaactgacatttgattttgtagGTTTCGCGCCACCTCTTTAGATGGACCAAAGAAGTGGTATATGCAGATTATTATGAGCGCGCCCTGACAAATGGTGTTTTGAGCATCCAAAGAGGAACAG---------------------------------------------------------
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-------------------------------------------------------gtatttccattttcttagcacacaaaaataaaat-gatttc--aggtttcgcgccacctgtttaaatggaccaaagaagtctcttatgcagactattactagCATGCCTTGACCAATGGTGTGCTCGGCATTCAAAGAGGGACCGATCCTGGAGTGATGATTTATATGCTTCCACTAGGTCTTGGGGTTTCCAAGGCTAAAAMapped 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|71855680|gb|DT004735.1|DT004735EST: CATGCACAACTTATAACATGCTAAAG GTTTCGCGCCACCTCTTTAGATGGACCAAAGAAGTGGTATATGCAGATTAT
genomic: CATGCACAACTTATAACATGCTAAAGgtgaatattc ... gattttgtagGTTTCGCGCCACCTCTTTAGATGGACCAAAGAAGTGGTATATGCAGATTAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.caccataaaagtcttctcttcattttcaaggacaaactgacatttgattttgtagGTTTCGCGCCACCTCTTTAGATGGACCAAAGAAGTGGTATATGCAGATTATTATGAGCGCGCCCTGACAAATGGTGTTTTGAGCATCCAAAGAGGAACAG
atttgatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttttattatgaacgtgtagctcaaggcgtgatttttatttatatcaccataaaagtcttctcttcattttcaaggacaaactgacatttgattttgtagGTTTCGCGCCACCTCTTTAGATGGACCAAAGAAGTGGTATATGCAGATTATTATGAGCGCGCCCTGACAAATGGTGTTTTGAGCATCCAAAGAGGAACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - -tatgaac
- - - - - - - -tgtagct
- - - - - - - - - - - - - - - - - - - - - -atcacca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggacaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctgacat