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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GACCCCATTTAATTAGTTTCAGAACGCCTGCTCGGCATGTGCCATTACAAGCTTCAATGACTGTAACAGATGgttggtatcacagcttcattaccttaagttggatttatagaataaatttttcttgatacagtacagccttagatccaaccacttgggttgggtgtagaaa...

Basic information

species Vitis vinifera
transcript Vv04s0023g01300.t01
intron # 14
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv04s0023g01300.t01 (Vitis vinifera), 5'ss of exon 14
lower sequence: GLYMA01G38410.1 (Glycine max), 5'ss of exon 14
GACCCCATTTAATTAGTTTCAGAACGCCTGCTCGGCATGTGCCATTACAAGCTTCAATGACTGTAACAGATGgttggtatcacagcttc--atta---ccttaagttggatttatagaataaatttttcttgatacagtacagccttagatccaaccacttgggttgggtgtagaaa---------------------------------------------------------------------------------------
|||| || ||||| ||||||||| | |  |||||  |||| ||||| ||| ||||||||||||| |||||||||||||||||    |||  | ||   | | || |||   |||     | |  |||   || ||   |  |   ||  ||   |    |  |  |  || |  |                                                                                         
GACCTCACTTAATCAGTTTCAGACCTCAGGCTCGAAATGTACCATTGCAATCTTCAATGACTGTTACAGATGgttggtatcattttttctaagtagaccatgaaattgtgattaccatgtta--tttatctgttattat-taattttgtatttgattgttctgaatcagtttcaatttatttactggtcttttcaaaggccacaaatgcttgattgtacttgaatgcatttgttatgagtgttgcattgaaattggtttttcag
















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|110429925|gb|EC996439.1|EC996439
EST:     GCTTCAATGACTGTAACAGATG                         AACCTGGTTACTACGAGGATGGGAACTTTGGCATAAGATTGGAGAATGTCC
genomic: GCTTCAATGACTGTAACAGATGgttggtatca ... tgttttccagAACCTGGTTACTACGAGGATGGGAACTTTGGCATAAGATTGGAGAATGTCC
EST: gi|27582875|gb|CB005570.1|CB005570
EST:     AATGACTGTAACAGATG                         AACCTGGTTACTACGAGGATGGGAACTTTGGCATAAGATTGGAGAATGTCC
genomic: AATGACTGTAACAGATGgttggtatca ... tgttttccagAACCTGGTTACTACGAGGATGGGAACTTTGGCATAAGATTGGAGAATGTCC
EST: gi|33401954|gb|CF207581.1|CF207581
EST:     AACACCTGCTCGGCATGTGCCATTACAAGCTTCAATGACTGTAACAGATG                         AACCTGGTTACTACGAGGATGGGAACTTTGGCATAAGATTGGAGAATGTCC
genomic: AACGCCTGCTCGGCATGTGCCATTACAAGCTTCAATGACTGTAACAGATGgttggtatca ... tgttttccagAACCTGGTTACTACGAGGATGGGAACTTTGGCATAAGATTGGAGAATGTCC
EST: gi|29782363|gb|CB347609.2|CB347609
EST:     AACACCTGCTCGGCATGTGCCATTACAAGCTTCAATGACTGTAACAGATG                         AACCTGGTTACTACGAGGATGGGAACTTTGGCATAAGATTGGAGAATGTCC
genomic: AACGCCTGCTCGGCATGTGCCATTACAAGCTTCAATGACTGTAACAGATGgttggtatca ... tgttttccagAACCTGGTTACTACGAGGATGGGAACTTTGGCATAAGATTGGAGAATGTCC
EST: gi|110694334|gb|EE071348.1|EE071348
EST:     AACACCTGCTCGGCATGTGCCATTACCAGCTTCAATGACTGTAACAAATG                         AACCTGGTTAAC-ACAAGGATGGGAACTTTTGGC-TAAGAATGGA
genomic: AACGCCTGCTCGGCATGTGCCATTACAAGCTTCAATGACTGTAACAGATGgttggtatca ... tgttttccagAACCTGGTTA-CTACGAGGATGGGAACTTT-GGCATAAGATTGGA
EST: gi|110700420|gb|EE078440.1|EE078440
EST:     AACGCCTGCTCGGCATGTGCCATTACAAGCTTCAATGACTGTAACAGATG                         AACCTGGTTACTACGAGGATGGGAACTTTGGCATAAGATTGGAGAATGTCC
genomic: AACGCCTGCTCGGCATGTGCCATTACAAGCTTCAATGACTGTAACAGATGgttggtatca ... tgttttccagAACCTGGTTACTACGAGGATGGGAACTTTGGCATAAGATTGGAGAATGTCC
EST: gi|30299030|gb|CB975824.1|CB975824
EST:     AACACCTGCTCGGCATGTGCCATTACAAGCTTCAATGACTGTAACAGATG                         AACCTGGTTACTACGAGGATGGGAACTTTGGCATAAGATTGGAGAATGTCC
genomic: AACGCCTGCTCGGCATGTGCCATTACAAGCTTCAATGACTGTAACAGATGgttggtatca ... tgttttccagAACCTGGTTACTACGAGGATGGGAACTTTGGCATAAGATTGGAGAATGTCC
EST: gi|32246039|gb|CD711858.1|CD711858
EST:     AATGACTGTAACAGATG                         AACCTGGTTACTACGAGGATGGGAACTTTGGCATAAGATTGGAGAATGTCC
genomic: AATGACTGTAACAGATGgttggtatca ... tgttttccagAACCTGGTTACTACGAGGATGGGAACTTTGGCATAAGATTGGAGAATGTCC
EST: gi|110379199|gb|EC944379.1|EC944379
EST:     AACACCTGCTCGGCATGTGCCATTACAAGCTTCAATGACTGTAACAGATG                         AACCTGGTTACTACGAGGATGGGAACTTTGGCATAAGATTGGAGAATGTCC
genomic: AACGCCTGCTCGGCATGTGCCATTACAAGCTTCAATGACTGTAACAGATGgttggtatca ... tgttttccagAACCTGGTTACTACGAGGATGGGAACTTTGGCATAAGATTGGAGAATGTCC
EST: gi|29782317|gb|CB347526.2|CB347526
EST:     AACACCTGCTCGGCATGTGCCATTACAAGCTTCAATGACTGTAACAGATG                         AACCTGGTTACTACGAGGATGGGAACTTTGGCATAAGATTGGAGAATGTCC
genomic: AACGCCTGCTCGGCATGTGCCATTACAAGCTTCAATGACTGTAACAGATGgttggtatca ... tgttttccagAACCTGGTTACTACGAGGATGGGAACTTTGGCATAAGATTGGAGAATGTCC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GACCCCATTTAATTAGTTTCAGAACGCCTGCTCGGCATGTGCCATTACAAGCTTCAATGACTGTAACAGATGgttggtatcacagcttcattaccttaagttggatttatagaataaatttttcttgatacagtacagccttagatccaaccacttgggttgggtgtagaaa

- - - - - - - - - - - - - - - - - - - - - - -  CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaataaa