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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTTTCTGTTGGGGATAAGTTAGCTGTGATTACCACCGATCCTTTCATGGAATTGACTTCTGCAATTCATGTCAAACGCATTGCTCGCGATCCCTCACAGCgtaatttttatctacttttttgttatttgttttgttttgttttttttttttaaatcagaattccagcaattctggatatttatttaggcttcgtttgatc...

Basic information

species Vitis vinifera
transcript Vv01s0011g06630.t01
intron # 2
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 2
lower sequence: GLYMA01G03610.2 (Glycine max), 5'ss of exon 2
TTTTCTGTTGGGGATAAGTTAGCTGTGATTACCACCGATCCTTTCATGGAATTGACTTCTGCAATTCATGTCAAACGCATTGCTCGCGATCCCTCACAGCgtaa-tttttatctacttttttgttatttgttttgttttgttt--tttttttttaaatcagaattccagcaattctggatatttatttaggcttcgtttgatc
||  | || || |||||| | || || || ||||| ||||| || ||||||||| | |||||||| ||||||||||||||||||  ||||||  |  | ||||| ||  | | | | ||  || | |  || |||||| | |   ||| |  |||||     | |  |  |||        | |    | |      |||   
TTCGCGGTCGGCGATAAGCTTGCCGTTATAACCACTGATCCCTTTATGGAATTGCCCTCTGCAATCCATGTCAAACGCATTGCTAACGATCCTGCTGAACgtaagttccttttttccttactggtctaggtcttgtttggataaatttctcattaaacgtttactagaagaataaatagcttatgcacaagtcaaaattg---
















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:     ATTGACTTCTGCAATTCATGTCAAACGCACTGCTCGCGATCCCTCACAGC                         AGACGGCTGAGTCTGCGCTTGTCATCAAGGGCCCTCAAGGAAGGATAAACA
genomic: ATTGACTTCTGCAATTCATGTCAAACGCATTGCTCGCGATCCCTCACAGCgtaattttta ... cttttttcagAGACGGCTGAGTCTGCGCTTGTCATCAAGGGCCCTCAAGGAAGGATAAACA
EST: gi|351053113|gb|FQ455570.1|FQ455570
EST:     ATTGACTTCTGCAATTCATGTCAAACGCATTGCTCGCGATCCCTCACAGC                         AGATGGCTGAGTCTGCGCTTGTCATCAAGGGCCCTCAAGGAAGGATAAACA
genomic: ATTGACTTCTGCAATTCATGTCAAACGCATTGCTCGCGATCCCTCACAGCgtaattttta ... cttttttcagAGACGGCTGAGTCTGCGCTTGTCATCAAGGGCCCTCAAGGAAGGATAAACA
EST: gi|351045922|gb|FQ441305.1|FQ441305
EST:     ATTGACTTCTGCAATTCATGTCAAACGCATTGCTCGCGATCCCTCACAGC                         AGATGGCTGAGTCTGCGCTTGTCATCAAGGGCCCTCAAGGAAGGATAAACA
genomic: ATTGACTTCTGCAATTCATGTCAAACGCATTGCTCGCGATCCCTCACAGCgtaattttta ... cttttttcagAGACGGCTGAGTCTGCGCTTGTCATCAAGGGCCCTCAAGGAAGGATAAACA
EST: gi|161715917|gb|FC068743.1|FC068743
EST:     ATTGACTTCTGCAATTCATGTCAAACGCATTGCTCGCGATCCCTCACAGC                         AGACGGCTGAGTCTGCGCTTGTCATCAAGGGCCCTCAAGGAAGGATAAACA
genomic: ATTGACTTCTGCAATTCATGTCAAACGCATTGCTCGCGATCCCTCACAGCgtaattttta ... cttttttcagAGACGGCTGAGTCTGCGCTTGTCATCAAGGGCCCTCAAGGAAGGATAAACA
EST: gi|351037979|gb|FQ465217.1|FQ465217
EST:     ATTGACTTCTGCAATTCATGTCAAACGCATTGCTCGCGATCCCTCACAGC                         AGATGGCTGAGTCTGCGCTTGTCATCAAGGGCCCTCAAGGAAGGATAAACA
genomic: ATTGACTTCTGCAATTCATGTCAAACGCATTGCTCGCGATCCCTCACAGCgtaattttta ... cttttttcagAGACGGCTGAGTCTGCGCTTGTCATCAAGGGCCCTCAAGGAAGGATAAACA
EST: gi|351049149|gb|FQ449871.1|FQ449871
EST:     ATTGACTTCTGCAATTCATGTCAAACGCATTGCTCGCGATCCCTCACAGC                         AGATGGCTGAGTCTGCGCTTGTCATCAAGGGCCCTCAAGGAAGGATAAACA
genomic: ATTGACTTCTGCAATTCATGTCAAACGCATTGCTCGCGATCCCTCACAGCgtaattttta ... cttttttcagAGACGGCTGAGTCTGCGCTTGTCATCAAGGGCCCTCAAGGAAGGATAAACA
EST: gi|351048997|gb|FQ449840.1|FQ449840
EST:     ATTGACTTCTGCAATTCATGTCAAACGCATTGCTCGCGATCCCTCACAGC                         AGATGGCTGAGTCTGCGCTTGTCATCAAGGGCCCTCAAGGAAGGATAAACA
genomic: ATTGACTTCTGCAATTCATGTCAAACGCATTGCTCGCGATCCCTCACAGCgtaattttta ... cttttttcagAGACGGCTGAGTCTGCGCTTGTCATCAAGGGCCCTCAAGGAAGGATAAACA
EST: gi|351039814|gb|FQ464852.1|FQ464852
EST:     ATTGACTTCTGCAATTCATGTCAAACGCATTGCTCGCGATCCCTCACAGC                         AGATGGCTGAGTCTGCGCTTGTCATCAAGGGCCCTCAAGGAAGGATAAACA
genomic: ATTGACTTCTGCAATTCATGTCAAACGCATTGCTCGCGATCCCTCACAGCgtaattttta ... cttttttcagAGACGGCTGAGTCTGCGCTTGTCATCAAGGGCCCTCAAGGAAGGATAAACA
EST: gi|351048315|gb|FQ449407.1|FQ449407
EST:     ATTGACTTCTGCAATTCATGTCAAACGCATTGCCCGCGATCCCTCACAGC                         AGATGGCTGAGTCTGCGCTTGTCATCAAGGGCCCTCAAGGAAGGATAAACA
genomic: ATTGACTTCTGCAATTCATGTCAAACGCATTGCTCGCGATCCCTCACAGCgtaattttta ... cttttttcagAGACGGCTGAGTCTGCGCTTGTCATCAAGGGCCCTCAAGGAAGGATAAACA
EST: gi|161714768|gb|FC063928.1|FC063928
EST:     ATTGACTTCTGCAATTCATGTCAAACGCATTGCTCGCGATCCCTCACAGC                         AGACGGCTGAGTCTGCGCTTGTCATCAAGGGCCCTCAAGGAAGGATAAACA
genomic: ATTGACTTCTGCAATTCATGTCAAACGCATTGCTCGCGATCCCTCACAGCgtaattttta ... cttttttcagAGACGGCTGAGTCTGCGCTTGTCATCAAGGGCCCTCAAGGAAGGATAAACA
EST: gi|351035651|gb|FQ463496.1|FQ463496
EST:     ATTGACTTCTGCAATTCATGTCAAACGCATTGCTCGCGATCCCTCACAGC                         AGATGGCTGAGTCTGCGCTTGTCATCAAGGGCCCTCAAGGAAGGATAAACA
genomic: ATTGACTTCTGCAATTCATGTCAAACGCATTGCTCGCGATCCCTCACAGCgtaattttta ... cttttttcagAGACGGCTGAGTCTGCGCTTGTCATCAAGGGCCCTCAAGGAAGGATAAACA
EST: gi|351025059|gb|FQ433476.1|FQ433476
EST:     ATTGACTTCTGCAATTCATGTCAAACGCATTGCTCGCGATCCCTCACAGC                         AGACGGCTGAGTCTGCGCTTGTCATCAAGGGCCCTCAAGGAAGGATAAACA
genomic: ATTGACTTCTGCAATTCATGTCAAACGCATTGCTCGCGATCCCTCACAGCgtaattttta ... cttttttcagAGACGGCTGAGTCTGCGCTTGTCATCAAGGGCCCTCAAGGAAGGATAAACA
EST: gi|349811971|gb|FQ410768.1|FQ410768
EST:     ATTGACTTCTGCAATTCATGTCAAACGCATTGCTCGCGATCCCTCACAGC                         AGACGGCTGAGTCTGCGCTTGTCATCAAGGGCCCTCAAGGAAGGATAAACA
genomic: ATTGACTTCTGCAATTCATGTCAAACGCATTGCTCGCGATCCCTCACAGCgtaattttta ... cttttttcagAGACGGCTGAGTCTGCGCTTGTCATCAAGGGCCCTCAAGGAAGGATAAACA
EST: gi|351036544|gb|FQ457257.1|FQ457257
EST:     ATTGACTTCTGCAATTCATGTCAAACGCATTGCTCGCGATCCCTCACAGC                         AGACGGCTGAGTCTGCGCTTGTCATCAAGGGCCCTCAAGGAAGGATAAACA
genomic: ATTGACTTCTGCAATTCATGTCAAACGCATTGCTCGCGATCCCTCACAGCgtaattttta ... cttttttcagAGACGGCTGAGTCTGCGCTTGTCATCAAGGGCCCTCAAGGAAGGATAAACA
EST: gi|351055042|gb|FQ440381.1|FQ440381
EST:     ATTGACTTCTGCAATTCATGTCAAACGCATTGTTCGCGATCCCTCACAGC                         AGATGGCTGAGTCTGCGCTTGTCATCAAGGGCCCTCAAGGAAGGATAAACA
genomic: ATTGACTTCTGCAATTCATGTCAAACGCATTGCTCGCGATCCCTCACAGCgtaattttta ... cttttttcagAGACGGCTGAGTCTGCGCTTGTCATCAAGGGCCCTCAAGGAAGGATAAACA
EST: gi|161719546|gb|FC067966.1|FC067966
EST:     ATTGACTTCTGCAATTCATGTCAAACGCATTGCTCGCGATCCCTCACAGC                         AGACGGCTGAGTCTGCGCTTGTCATCAAGGGCCCTCAAGGAAGGATAAACA
genomic: ATTGACTTCTGCAATTCATGTCAAACGCATTGCTCGCGATCCCTCACAGCgtaattttta ... cttttttcagAGACGGCTGAGTCTGCGCTTGTCATCAAGGGCCCTCAAGGAAGGATAAACA
EST: gi|351012497|gb|FQ430061.1|FQ430061
EST:     ATTGACTTCTGCAATTCATGTCAAACGCATTGCTCGCGATCCCTCACAGC                         AGACGGCTGAGTCTGCGCTTGTCATCAAGGGCCCTCAAGGAAGGATAAACA
genomic: ATTGACTTCTGCAATTCATGTCAAACGCATTGCTCGCGATCCCTCACAGCgtaattttta ... cttttttcagAGACGGCTGAGTCTGCGCTTGTCATCAAGGGCCCTCAAGGAAGGATAAACA
EST: gi|351040625|gb|FQ438169.1|FQ438169
EST:     ATTGACTTCTGCAATTCATGTCAAACGCATTGCTCGCGATCCCTCACAGC                         AGACGGCTGAGTCTGCGCTTGTCATCAAGGGCCCTCAAGGAAGGATAAACA
genomic: ATTGACTTCTGCAATTCATGTCAAACGCATTGCTCGCGATCCCTCACAGCgtaattttta ... cttttttcagAGACGGCTGAGTCTGCGCTTGTCATCAAGGGCCCTCAAGGAAGGATAAACA
EST: gi|351048235|gb|FQ442205.1|FQ442205
EST:     ATTGACTTCTGCAATTCATGTCAAACGCATTGCTCGCGATCCCTCACAGC                         AGATGGCTGAGTCTGCGCTTGTCATCAAGGGCCCTCAAGGAAGGATAAACA
genomic: ATTGACTTCTGCAATTCATGTCAAACGCATTGCTCGCGATCCCTCACAGCgtaattttta ... cttttttcagAGACGGCTGAGTCTGCGCTTGTCATCAAGGGCCCTCAAGGAAGGATAAACA
EST: gi|110411322|gb|EC977030.1|EC977030
EST:     GCAATTCATGTCAAACGCATTGCTCGCGATCCCTCACAGC                         AGACGGCTGAGTCTGCGCTTGTCATCAAGGGCCCTCAAGGAAGGATAAACA
genomic: GCAATTCATGTCAAACGCATTGCTCGCGATCCCTCACAGCgtaattttta ... cttttttcagAGACGGCTGAGTCTGCGCTTGTCATCAAGGGCCCTCAAGGAAGGATAAACA
EST: gi|351015244|gb|FQ445528.1|FQ445528
EST:     ATTGACTTCTGCAATTCATGTCAAACGCATTGCTCGCGATCCCTCACAGC                         AGACGGCTGAGTCTGCGCTTGTCATCAAGGGCCCTCAAGGAAGGATAAACA
genomic: ATTGACTTCTGCAATTCATGTCAAACGCATTGCTCGCGATCCCTCACAGCgtaattttta ... cttttttcagAGACGGCTGAGTCTGCGCTTGTCATCAAGGGCCCTCAAGGAAGGATAAACA
EST: gi|349831103|gb|FQ420773.1|FQ420773
EST:     ATTGACTTCTGCAATTCATGTCAAACGCATTGCTCGCGATCCCTCACAGC                         AGACGGCTGAGTCTGCGCTTGTCATCAAGGGCCCTCAAGGAAGGATAAACA
genomic: ATTGACTTCTGCAATTCATGTCAAACGCATTGCTCGCGATCCCTCACAGCgtaattttta ... cttttttcagAGACGGCTGAGTCTGCGCTTGTCATCAAGGGCCCTCAAGGAAGGATAAACA
EST: gi|110369193|gb|EC933345.1|EC933345
EST:     ATTGACTTCTGCAATTCATGTCAAACGCATTGCTCGCGATCCCTCACAGC                         AGACGGCTGAGTCTGCGCTTGTCATCAAGGGCCCTCAAGGAAGGATAAACA
genomic: ATTGACTTCTGCAATTCATGTCAAACGCATTGCTCGCGATCCCTCACAGCgtaattttta ... cttttttcagAGACGGCTGAGTCTGCGCTTGTCATCAAGGGCCCTCAAGGAAGGATAAACA
EST: gi|351029364|gb|FQ436758.1|FQ436758
EST:     ATTGACTTCTGCAATTCATGTCAAACGCATTGCTCGCGATCCCTCACAGC                         AGACGGCTGAGTCTGCGCTTGTCATCAAGGGCCCTCAAGGAAGGATAAACA
genomic: ATTGACTTCTGCAATTCATGTCAAACGCATTGCTCGCGATCCCTCACAGCgtaattttta ... cttttttcagAGACGGCTGAGTCTGCGCTTGTCATCAAGGGCCCTCAAGGAAGGATAAACA
EST: gi|349810075|gb|FQ401521.1|FQ401521
EST:     TCAAGCGCATTGCTCGCGATCCCTCACAGC                         AGACGGCTGAGTCTGCGCTTGTCATCAAGGGCCCTCAAGGAAGGATAAACA
genomic: TCAAACGCATTGCTCGCGATCCCTCACAGCgtaattttta ... cttttttcagAGACGGCTGAGTCTGCGCTTGTCATCAAGGGCCCTCAAGGAAGGATAAACA
EST: gi|351012844|gb|FQ430407.1|FQ430407
EST:     ATTGACTTCTGCAATTCATGTCAAACGCATTGCTCGCGATCCCTCACAGC                         AGACGGCTGAGTCTGCGCTTGTCATCAAGGGCCCTCAAGGAAGGATAAACA
genomic: ATTGACTTCTGCAATTCATGTCAAACGCATTGCTCGCGATCCCTCACAGCgtaattttta ... cttttttcagAGACGGCTGAGTCTGCGCTTGTCATCAAGGGCCCTCAAGGAAGGATAAACA
EST: gi|351053994|gb|FQ441760.1|FQ441760
EST:     ATTGACTTCTGCAATTCATGTCAAACGCATTGCTCGCGATCCCTCACAGC                         AGATGGCTGAGTCTGCGCTTGTCATCAAGGGCCCTCAAGGAAGGATAAACA
genomic: ATTGACTTCTGCAATTCATGTCAAACGCATTGCTCGCGATCCCTCACAGCgtaattttta ... cttttttcagAGACGGCTGAGTCTGCGCTTGTCATCAAGGGCCCTCAAGGAAGGATAAACA
EST: gi|351055014|gb|FQ440353.1|FQ440353
EST:     ATTGACTTCTGCAATTCATGTCAAACGCATTGCTCGCGATCCCTCACAGC                         AGATGGCTGAGTCTGCGCTTGTCATCAAGGGCCCTCAAGGAAGGATAAACA
genomic: ATTGACTTCTGCAATTCATGTCAAACGCATTGCTCGCGATCCCTCACAGCgtaattttta ... cttttttcagAGACGGCTGAGTCTGCGCTTGTCATCAAGGGCCCTCAAGGAAGGATAAACA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTTTCTGTTGGGGATAAGTTAGCTGTGATTACCACCGATCCTTTCATGGAATTGACTTCTGCAATTCATGTCAAACGCATTGCTCGCGATCCCTCACAGCgtaatttttatctacttttttgttatttgttttgttttgttttttttttttaaatcagaattccagcaattctggatatttatttaggcttcgtttgatc

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaatcaga