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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GGGCCCTCAAGGAAGGATAAACAGAGCTATTTGGGGACCCTTAAACAGGACTATCATAAGTGCTGGTGAAGATGCCATTGTTCGTATATGGGATTCTGAGgtaagtgtctgcattaggtttatggttgactgctaaccttgatggaaataattaaggtgttgttttgatacactttttaaaactgaaaataatagtaatt...

Basic information

species Vitis vinifera
transcript Vv01s0011g06630.t01
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv01s0011g06630.t01 (Vitis vinifera), 5'ss of exon 3
lower sequence: GLYMA01G03610.2 (Glycine max), 5'ss of exon 3
GGGCCCTCAAGGAAGGATAAACAGAGCTATTTGGGGACCCTTAAACAGGACTATCATAAGTGCTGGTGAAGATGCCATTGTTCGTATATGGGATTCTGAGgtaagtgtctgcattaggtttatggttgactgctaaccttgatggaaataattaaggtgttgttttgata-cactttttaaaactgaaaataatagtaatt
||| ||||| ||||| ||||| || ||||||||||||||  | ||||| || || || ||||| |||||||||||  || ||||||| |||||||||||||| |     | || |   ||  ||  ||||      | ||  |   | ||       | ||| |||| || |||||||    ||| ||  |  | | |   
GGGTCCTCAGGGAAGAATAAATAGGGCTATTTGGGGACCTCTCAACAGAACCATTATTAGTGCCGGTGAAGATGCTGTTATTCGTATTTGGGATTCTGAGgtga----tttcacttccttcctgcctgaccctcttctttctttccattac-----attttgctttgctaacactttt----acttaatttgtttgcag--
















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|349811833|gb|FQ410630.1|FQ410630
EST:     CTATCATAAGTGCTGGTGAAGATGCCTTTGTTCGTATATGGGATTTTGAG                         ACGGGGAAACTGCTTAAAGAGTCTGACAAGGAAACCCGCCACAAAA
genomic: CTATCATAAGTGCTGGTGAAGATGCCATTGTTCGTATATGGGATTCTGAGgtaagtgtct ... aaacttgcagACGGGGAAACTGCTTAAAGAGTCAGACAAGGAAACCGGCCACAAAA
EST: gi|351053113|gb|FQ455570.1|FQ455570
EST:     CTATCATAAGTGCTGGTGAAGATGCTATTGTTCGTATATGGGATTCTGAG                         ACGGGGAAACTGCTTAAAGAGTCTGACAAGGAAACCGGCCACAAAAAGGCA
genomic: CTATCATAAGTGCTGGTGAAGATGCCATTGTTCGTATATGGGATTCTGAGgtaagtgtct ... aaacttgcagACGGGGAAACTGCTTAAAGAGTCAGACAAGGAAACCGGCCACAAAAAGACA
EST: gi|351045922|gb|FQ441305.1|FQ441305
EST:     CTATCATAAGTGCTGGTGAAGATGCTATTGTTCGTATATGGGATTCTGAG                         ACGGGGAAACTGCTTAAAGAGTCTGACAAGGAAACCGGCCACAAAAAGGCA
genomic: CTATCATAAGTGCTGGTGAAGATGCCATTGTTCGTATATGGGATTCTGAGgtaagtgtct ... aaacttgcagACGGGGAAACTGCTTAAAGAGTCAGACAAGGAAACCGGCCACAAAAAGACA
EST: gi|161715917|gb|FC068743.1|FC068743
EST:     CTATCATAAGTGCTGGTGAAGATGCTATTGTTCGTATATGGGATTCTGAG                         ACGGGGAAACTGCTTAAAGAGTCAGACAAGGAAACCGGCCACAAAAAGACA
genomic: CTATCATAAGTGCTGGTGAAGATGCCATTGTTCGTATATGGGATTCTGAGgtaagtgtct ... aaacttgcagACGGGGAAACTGCTTAAAGAGTCAGACAAGGAAACCGGCCACAAAAAGACA
EST: gi|351037979|gb|FQ465217.1|FQ465217
EST:     CTATCATAAGTGCTGGTGAAGATGCTATTGTTCGTATATGGGATTCTGAG                         ACGGGGAAACTGCTTAAAGAGTCTGACAAGGAAACCGGCCACAAAAAGGCA
genomic: CTATCATAAGTGCTGGTGAAGATGCCATTGTTCGTATATGGGATTCTGAGgtaagtgtct ... aaacttgcagACGGGGAAACTGCTTAAAGAGTCAGACAAGGAAACCGGCCACAAAAAGACA
EST: gi|351049149|gb|FQ449871.1|FQ449871
EST:     CTATCATAAGTGCTGGTGAAGATGCTATTGTTCGTATATGGGATTCTGAG                         ACGGGGAAACTGCTTAAAGAGTCTGACAAGGAAACCGGCCACAAAAAGGCA
genomic: CTATCATAAGTGCTGGTGAAGATGCCATTGTTCGTATATGGGATTCTGAGgtaagtgtct ... aaacttgcagACGGGGAAACTGCTTAAAGAGTCAGACAAGGAAACCGGCCACAAAAAGACA
EST: gi|351048997|gb|FQ449840.1|FQ449840
EST:     CTATCATAAGTGCTGGTGAAGATGCTATTGTTCGTATATGGGATTCTGAG                         ACGGGGAAACTGCTTAAAGAGTCTGACAAGGAAACCGGCCACAAAAAGGCA
genomic: CTATCATAAGTGCTGGTGAAGATGCCATTGTTCGTATATGGGATTCTGAGgtaagtgtct ... aaacttgcagACGGGGAAACTGCTTAAAGAGTCAGACAAGGAAACCGGCCACAAAAAGACA
EST: gi|351039814|gb|FQ464852.1|FQ464852
EST:     CTATCATAAGTGCTGGTGAAGATGCTATTGTTCGTATATGGGATTCTGAG                         ACGGGGAAACTGCTTAAAGAGTCTGACAAGGAAACCGGCCACAAAAAGGCA
genomic: CTATCATAAGTGCTGGTGAAGATGCCATTGTTCGTATATGGGATTCTGAGgtaagtgtct ... aaacttgcagACGGGGAAACTGCTTAAAGAGTCAGACAAGGAAACCGGCCACAAAAAGACA
EST: gi|29783544|gb|CB349778.2|CB349778
EST:     CTATCATAAGTGCTGGTGAAGATGCTATTGTTCGTATATGGGATTCTGAG                         ACGGGGAAACTGCTTAAAGAGTCAGACAAGGAAACCGGCCACAAAAAGACA
genomic: CTATCATAAGTGCTGGTGAAGATGCCATTGTTCGTATATGGGATTCTGAGgtaagtgtct ... aaacttgcagACGGGGAAACTGCTTAAAGAGTCAGACAAGGAAACCGGCCACAAAAAGACA
EST: gi|351048315|gb|FQ449407.1|FQ449407
EST:     CTATCATAAGTGCTGGTGAAGATGCTATTGTCCGTATATGGGATTCTGAG                         ACGGGGAAACTGCTTAAAGAGTCTGACAAGGAAACCGGCCACAAAAAGGCA
genomic: CTATCATAAGTGCTGGTGAAGATGCCATTGTTCGTATATGGGATTCTGAGgtaagtgtct ... aaacttgcagACGGGGAAACTGCTTAAAGAGTCAGACAAGGAAACCGGCCACAAAAAGACA
EST: gi|161714768|gb|FC063928.1|FC063928
EST:     CTATCATAAGTGCTGGTGAAGATGCTATTGTTCGTATATGGGATTCTGAG                         ACGGGGAAACTGCTTAAAGAGTCAGACAAGGAAACCGGCCACAAAAAGACA
genomic: CTATCATAAGTGCTGGTGAAGATGCCATTGTTCGTATATGGGATTCTGAGgtaagtgtct ... aaacttgcagACGGGGAAACTGCTTAAAGAGTCAGACAAGGAAACCGGCCACAAAAAGACA
EST: gi|351035651|gb|FQ463496.1|FQ463496
EST:     CTATCATAAGTGCTGGTGAAGATGCTATTGTTCGTATATGGGATTCTGAG                         ACGGGGAAACTGCTTAAAGAGTCTGACAAGGAAACCGGCCACAAAAAGGCA
genomic: CTATCATAAGTGCTGGTGAAGATGCCATTGTTCGTATATGGGATTCTGAGgtaagtgtct ... aaacttgcagACGGGGAAACTGCTTAAAGAGTCAGACAAGGAAACCGGCCACAAAAAGACA
EST: gi|351025059|gb|FQ433476.1|FQ433476
EST:     CTATCATAAGTGCTGGTGAAGATGCTATTGTTCGTATATGGGATTCTGAG                         ACGGGGAAACTGCTTAAAGAGTCTGACAAGGAAACCGGCCACAAAAAGACA
genomic: CTATCATAAGTGCTGGTGAAGATGCCATTGTTCGTATATGGGATTCTGAGgtaagtgtct ... aaacttgcagACGGGGAAACTGCTTAAAGAGTCAGACAAGGAAACCGGCCACAAAAAGACA
EST: gi|349811971|gb|FQ410768.1|FQ410768
EST:     CTATCATAAGTGCTGGTGAAGATGCTATTGTTCGTATATGGGATTCTGAG                         ACGGGGAAACTGCTTAAAGAGTCTGACAAGGAAACCGGCCACAAAAAGACA
genomic: CTATCATAAGTGCTGGTGAAGATGCCATTGTTCGTATATGGGATTCTGAGgtaagtgtct ... aaacttgcagACGGGGAAACTGCTTAAAGAGTCAGACAAGGAAACCGGCCACAAAAAGACA
EST: gi|351036544|gb|FQ457257.1|FQ457257
EST:     CTATCATAAGTGCTGGTGAAGATGCTATTGTTCGTATATGGGATTCTGAG                         ACGGGGAAACTGCTTAAAGAGTCTGACAAGGAAACCGGCCACAAAAAGACA
genomic: CTATCATAAGTGCTGGTGAAGATGCCATTGTTCGTATATGGGATTCTGAGgtaagtgtct ... aaacttgcagACGGGGAAACTGCTTAAAGAGTCAGACAAGGAAACCGGCCACAAAAAGACA
EST: gi|110697326|gb|EE074214.1|EE074214
EST:     CATAAGTGCTGGTGAAGATGCTATTGTTCGTATATGGGATTCTGAG                         ACGGGGAAACTGCTTAAAGAGTCAGACAAGGAAACCGGCCACAAAAAGACA
genomic: CATAAGTGCTGGTGAAGATGCCATTGTTCGTATATGGGATTCTGAGgtaagtgtct ... aaacttgcagACGGGGAAACTGCTTAAAGAGTCAGACAAGGAAACCGGCCACAAAAAGACA
EST: gi|351055042|gb|FQ440381.1|FQ440381
EST:     CTATCATAAGTGCTGGTGAAGATGCTATTGTTCGTATATGGGATTCTGAG                         ACGGGGAAACTGCTTAAAGAGTCTGACAAGGAAACCGGCCACAAAAAGGCA
genomic: CTATCATAAGTGCTGGTGAAGATGCCATTGTTCGTATATGGGATTCTGAGgtaagtgtct ... aaacttgcagACGGGGAAACTGCTTAAAGAGTCAGACAAGGAAACCGGCCACAAAAAGACA
EST: gi|161719546|gb|FC067966.1|FC067966
EST:     CTATCATAAGTGCTGGTGAAGATGCTATTGTTCGTATATGGGATTCTGAG                         ACGGGGAAACTGCTTAAAGAGTCAGACAAGGAAACCGGCCACAAAAAGACA
genomic: CTATCATAAGTGCTGGTGAAGATGCCATTGTTCGTATATGGGATTCTGAGgtaagtgtct ... aaacttgcagACGGGGAAACTGCTTAAAGAGTCAGACAAGGAAACCGGCCACAAAAAGACA
EST: gi|351012497|gb|FQ430061.1|FQ430061
EST:     CTATCATAAGTGCTGGTGAAGATGCTATTGTTCGTATATGGGATTCTGAG                         ACGGGGAAACTGCTTAAAGAGTCTGACAAGGAAACCGGCCACAAAAAGACA
genomic: CTATCATAAGTGCTGGTGAAGATGCCATTGTTCGTATATGGGATTCTGAGgtaagtgtct ... aaacttgcagACGGGGAAACTGCTTAAAGAGTCAGACAAGGAAACCGGCCACAAAAAGACA
EST: gi|351040625|gb|FQ438169.1|FQ438169
EST:     CTATCATAAGTGTTGGTGAAGATGCTATTGTTCGTATATGGGATTCTGAG                         ACGGGGAAACTGCTTAAAGAGTCTGACAAGGAAACCGGCCACAAAAAGACA
genomic: CTATCATAAGTGCTGGTGAAGATGCCATTGTTCGTATATGGGATTCTGAGgtaagtgtct ... aaacttgcagACGGGGAAACTGCTTAAAGAGTCAGACAAGGAAACCGGCCACAAAAAGACA
EST: gi|351048235|gb|FQ442205.1|FQ442205
EST:     CTATCATAAGTGCTGGTGAAGATGCTATTGTTCGTATATGGGATTCTGAG                         ACGGGGAAACTGCTTAAAGAGTCTGACAAGGAAACCGGCCACAAAAAGGCA
genomic: CTATCATAAGTGCTGGTGAAGATGCCATTGTTCGTATATGGGATTCTGAGgtaagtgtct ... aaacttgcagACGGGGAAACTGCTTAAAGAGTCAGACAAGGAAACCGGCCACAAAAAGACA
EST: gi|110411322|gb|EC977030.1|EC977030
EST:     CTATCATAAGTGCTGGTGAAGATGCCATTGTTCGTATATGGGATTCTGAG                         ACGGGGAAACTGCTTAAAGAGTCAGACAAGGAAACCGGCCACAAAAAGACA
genomic: CTATCATAAGTGCTGGTGAAGATGCCATTGTTCGTATATGGGATTCTGAGgtaagtgtct ... aaacttgcagACGGGGAAACTGCTTAAAGAGTCAGACAAGGAAACCGGCCACAAAAAGACA
EST: gi|351015244|gb|FQ445528.1|FQ445528
EST:     CTATCATAAGTGCTGGTGAAGATGCTATTGTTCGTATATGGGATTCTGAG                         ACGGGGAAACTGCTTAAAGAGTCTGACAAGGAAACCGGCCACAAAAAGACA
genomic: CTATCATAAGTGCTGGTGAAGATGCCATTGTTCGTATATGGGATTCTGAGgtaagtgtct ... aaacttgcagACGGGGAAACTGCTTAAAGAGTCAGACAAGGAAACCGGCCACAAAAAGACA
EST: gi|349831103|gb|FQ420773.1|FQ420773
EST:     CTATCATAAGTGCTGGTGAAGATGCTATTGTTCGTATATGGGATTCTGAG                         ACGGGGAAACTGCTTAAAGAGTCTGACAAGGAAACCGGCCACAAAAAGACA
genomic: CTATCATAAGTGCTGGTGAAGATGCCATTGTTCGTATATGGGATTCTGAGgtaagtgtct ... aaacttgcagACGGGGAAACTGCTTAAAGAGTCAGACAAGGAAACCGGCCACAAAAAGACA
EST: gi|110369193|gb|EC933345.1|EC933345
EST:     CTATCATAAGTGCTGGTGAAGATGCTATTGTTCGTATATGGGATTCTGAG                         ACGGGGAAACTGCTTAAAGAGTCAGACAAGGAAACCGGCCACAAAAAGACA
genomic: CTATCATAAGTGCTGGTGAAGATGCCATTGTTCGTATATGGGATTCTGAGgtaagtgtct ... aaacttgcagACGGGGAAACTGCTTAAAGAGTCAGACAAGGAAACCGGCCACAAAAAGACA
EST: gi|351029364|gb|FQ436758.1|FQ436758
EST:     CTATCATAAGTGCTGGTGAAGATGCTATTGTTCGTATATGGGATTCTGAG                         ACGGGGAAACTGCTTAAAGAGTCTGACAAGGAAACCGGCCACAAAAAGACA
genomic: CTATCATAAGTGCTGGTGAAGATGCCATTGTTCGTATATGGGATTCTGAGgtaagtgtct ... aaacttgcagACGGGGAAACTGCTTAAAGAGTCAGACAAGGAAACCGGCCACAAAAAGACA
EST: gi|349810075|gb|FQ401521.1|FQ401521
EST:     CTATCATAAGTGCTGGTGAAGATGCTATTGTTCGTATATGGGATTCTGAG                         ACGGGGAAACTGCTTAAAGAGTCTGACAAGGAAACCGGCCACAAAAAGACA
genomic: CTATCATAAGTGCTGGTGAAGATGCCATTGTTCGTATATGGGATTCTGAGgtaagtgtct ... aaacttgcagACGGGGAAACTGCTTAAAGAGTCAGACAAGGAAACCGGCCACAAAAAGACA
EST: gi|351012844|gb|FQ430407.1|FQ430407
EST:     CTATCATAAGTGCTGGTGAAGATGCTATTGTTCGTATATGGGATTCTGAG                         ACGGGGAAACTGCTTAAAGAGTCTGACAAGGAAACCGGCCACAAAAAGACA
genomic: CTATCATAAGTGCTGGTGAAGATGCCATTGTTCGTATATGGGATTCTGAGgtaagtgtct ... aaacttgcagACGGGGAAACTGCTTAAAGAGTCAGACAAGGAAACCGGCCACAAAAAGACA
EST: gi|351053994|gb|FQ441760.1|FQ441760
EST:     CTATCATAAGTGCTGGTGAAGATGCTATTGTTCGTATATGGGATTCTGAG                         ACGGGGAAACTGCTTAAAGAGTCTGACAAGGAAACCGGCCACAAAAAGGCA
genomic: CTATCATAAGTGCTGGTGAAGATGCCATTGTTCGTATATGGGATTCTGAGgtaagtgtct ... aaacttgcagACGGGGAAACTGCTTAAAGAGTCAGACAAGGAAACCGGCCACAAAAAGACA
EST: gi|351055014|gb|FQ440353.1|FQ440353
EST:     CTATCATAAGTGCTGGTGAAGATGCTATTGTTCGTATATGGGATTCTGAG                         ACGGGGAAACTGCTTAAAGAGTCTGACAAGGAAACCGGCCACAAAAAGGCA
genomic: CTATCATAAGTGCTGGTGAAGATGCCATTGTTCGTATATGGGATTCTGAGgtaagtgtct ... aaacttgcagACGGGGAAACTGCTTAAAGAGTCAGACAAGGAAACCGGCCACAAAAAGACA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GGGCCCTCAAGGAAGGATAAACAGAGCTATTTGGGGACCCTTAAACAGGACTATCATAAGTGCTGGTGAAGATGCCATTGTTCGTATATGGGATTCTGAGgtaagtgtctgcattaggtttatggttgactgctaaccttgatggaaataattaaggtgttgttttgatacactttttaaaactgaaaataatagtaatt

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaaataa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaataa