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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGAACAAAGTGAATAGTGGGATGCTCAAAATGTATAAAGCTGAGGTGTTGGAGAAGGTTCCAATTATGCAGCATTTCCTATTTGGGTGGCTCATCAAATGgtatgatcactgttaatgagtaattagccctgtatgtgattcatgcatttttagttcattataagtcatccacactttgcatcatgtttaattgggaatc...

Basic information

species Vitis vinifera
transcript Vv18s0001g06200.t01
intron # 1
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv18s0001g06200.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: LOC_Os06g11640.1 (Oryza sativa), 5'ss of exon 1
GGAACAAAGTGAATAGTGGGATGCTCAAAATGTATAAAGCTGAGGTGTTGGAGAAGGTTCCAATTATGCAGCATTTCCTATTTGGGTGGCTCATCAAATGgtatg-atcactgttaatgagtaattagccctgt-atgtgattcatg-catttttagttcattataagtcatccaca-ctttgcatcatgtttaattgggaatc
|||| || ||||| || ||| ||||||| ||||| || ||||||||| | ||||| || || ||||||||||||||||| ||||| |  |||||||||||||||| ||||     | |   |||||  || ||  ||||  ||  || || || | | |  || |   |||  || | || ||||       ||     |||  
GGAAGAAGGTGAACAGCGGGCTGCTCAAGATGTACAAGGCTGAGGTGCTTGAGAAAGTGCCGATTATGCAGCATTTCCTCTTTGGTTCACTCATCAAATGgtatggatcatgaacattctttaatttaccttgcgatgtatttggtggcagttgttgatacttgtttatcacacaaagctatgcaaaga---taggaaagaac-

upper sequence: Vv18s0001g06200.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GRMZM2G058560_T01 (Zea mays), 5'ss of exon 1
GGAACAAAGTGAATAGTGGGATGCTCAAAATGTATAAAGCTGAGGTGTTGGAGAAGGTTCCAATTATGCAGCATTTCCTATTTGGGTGGCTCATCAAATGgtatgatcactgttaatgagtaattagccctgtatgtgattcatgcatttttagttcattataagtcatccacactttgcatcatgtttaattgggaatc--
|||| ||||| || |||||| |||| || ||||| || ||||||||| | ||||| || || || |||||||||||||| ||||| |  || ||||||||||||||    |     | | || ||   |  |  |||| ||         | ||||  |  ||     || |   |        ||||| |   ||  ||  
GGAAGAAAGTTAACAGTGGGCTGCTAAAGATGTACAAGGCTGAGGTGCTTGAGAAAGTACCGATCATGCAGCATTTCCTCTTTGGCTCACTAATCAAATGgtatgagttgtagcgctta-tatttttgctcgcctgtgttttggtgcccatgagttggtcttattagttcaatgttacaaccagtgttttaa-aggcgtcgc

upper sequence: Vv18s0001g06200.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: GLYMA11G19110.1 (Glycine max), 5'ss of exon 1
GGAACAAAGTGAATAGTGGGATGCTCAAAATGTATAAAGCTGAGGTGTTGGAGAAGGTTCCAATTATGCAGCATTTCCTATTTGGGTGGCTCATCAAATGgtatga---tcactgttaatgagtaattagccctgtatgtgattcatgcatttttagttcattataagtcatccacact-ttgcatcatgtttaattgggaatc
||||||| ||||| | |||| |||| ||||||||||| |||||||| ||||||||||| || || |||||||| || || || |||| | | || || |||||||    |  |||||  ||  |  |    |    || |||||     || | |      ||| | ||  |   || |  |||||  | |   |||  |    
GGAACAAGGTGAACACTGGGTTGCTTAAAATGTATAAGGCTGAGGTCTTGGAGAAGGTCCCCATCATGCAGCACTTTCTTTTCGGGTCGATTATTAAGTGgtatgtgtcttgctgtttttgc-tcgtgtttctaacatttgatttgattatatatctgcacttaaatgtgtttgccattgctgcattgtatcccattatgt---

upper sequence: Vv18s0001g06200.t01 (Vitis vinifera), 5'ss of exon 1
lower sequence: AT4G08960.1 (Arabidopsis thaliana), 5'ss of exon 1
GGAACAAAGTGAATAGTGGGATGCTCAAAATGTATAAAGCTGAGGTGTTGGAGAAGGTTCCAATTATGCAGCATTTCCTATTTGGGTGGCTCATCAAATGgtatgatcactgttaatgagtaattagccctgtatgtgattcatgcatttttagttcattataagtcatccacactttgcatcatgtttaattgg--gaatc---
|||| ||||||||||| ||  |||| || ||||||| || ||| ||| | ||||| ||||| ||||||||||||||||| ||||| |||||||||||||||||||||   | ||  |   |  || | |  || | |   | || |  | ||  || |  |||    | ||     |||  | ||| ||  | |   | ||    
GGAAGAAAGTGAATAGCGGTTTGCTTAAGATGTATAGAGTTGAAGTGCTTGAGAAAGTTCCGATTATGCAGCATTTCCTCTTTGGCTGGCTCATCAAATGgtatgattcttcttttttcct--tttgtctcgtttttagctgat-ctctattgctttaaaataga--aacctttggttgtgtaatggtttgtcgattggattatc

Mapped 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|30329004|gb|CD012266.1|CD012266
EST:     GAGAAGGTTCCAATTATGCAGCATTTCCTATTTGGGTGGCTCATCAAATG                         GGACTAATTTGGTGTATCTGCTCTGTTGAAACATTTTCTGTGGAACAAAGA
genomic: GAGAAGGTTCCAATTATGCAGCATTTCCTATTTGGGTGGCTCATCAAATGgtatgatcac ... ttttccccagGGACTAATTTGGTGTATCTGCTCTGTTGAAACATTTTCTGTGGAACAAAGA
EST: gi|27581900|gb|CB004595.1|CB004595
EST:     GAGAAGGTTCCAATTATGCAGCATTTCCTATTTGGGTGGCTCATCAAATG                         GGACTAATTTGGTGTATCTGCTCTGTTGAAACATTTTCTGTGGAACAAAGA
genomic: GAGAAGGTTCCAATTATGCAGCATTTCCTATTTGGGTGGCTCATCAAATGgtatgatcac ... ttttccccagGGACTAATTTGGTGTATCTGCTCTGTTGAAACATTTTCTGTGGAACAAAGA
EST: gi|110694013|gb|EE070747.1|EE070747
EST:     GAGAAGGTTCCAATTATGCAGCATTTCCTATTTGGGTGGCTCATCAAATG                         GGACTAATTTGGTGTATCTGCTCTGTTGAAACACTTTCTGTGGAACAAAGA
genomic: GAGAAGGTTCCAATTATGCAGCATTTCCTATTTGGGTGGCTCATCAAATGgtatgatcac ... ttttccccagGGACTAATTTGGTGTATCTGCTCTGTTGAAACATTTTCTGTGGAACAAAGA