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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAACAAGGACAAGGCGCTCTTCACTATTGTTGTCTCTGGAACTGAAAGGGTGTTGCAGCAAGTTGTAGAGCAACTTCACAAGCTTGTGAATGTTCTGAAGgtttatctattgcattttctttaatcttttaacatgatatattaattttcaattttcaaccacacagatttgttttttttccattgggaatttttgttct...

Basic information

species Vitis vinifera
transcript Vv05s0094g01110.t01
intron # 2
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv05s0094g01110.t01 (Vitis vinifera), 5'ss of exon 2
lower sequence: AT2G31810.3 (Arabidopsis thaliana), 5'ss of exon 2
GAACAAGGACAAGGCGCTCTTCACTATTGTTGTCTCTGGAACTGAAAGGGTGTTGCAGCAAGTTGTAGAGCAACTTCACAAGCTTGTGAATGTTCTGAAGgtttatctattgc---attttctttaatc-ttttaacatga-tata--ttaattt---tcaattttcaaccaca-cagatttgttttttttccattgggaatttttgttct--------------------------------------------
|||||  |||||||| || ||||| || ||||||| |||||||||||||||  | ||||| ||  | |||||||| || ||||| || |||||||| ||||||  ||| |||    ||     ||| |  |||   ||||| ||||  || |||     ||| |||   |  || |  ||||| || ||    ||| | |  ||   ||                                              
GAACAGAGACAAGGCTCTATTCACCATAGTTGTCTGTGGAACTGAAAGGGTACTTCAGCAGGTCATCGAGCAACTCCAGAAGCTCGTTAATGTTCTAAAGgttgttcttttgttagatcgcacttattagtttctgcatgactatagtttcattcgcaccaactttacgcatcagccaatttgcttattcattatttgaagattacatttgcgatttccttttccattctcttcattgacttggacatgaattag
















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|37188685|gb|CF608034.1|CF608034
EST:     TGTTGCAGCAAGTTGTAGAGCAACTTCACAAGCTTGTGAATGTTCTGAAG                         GTTGAAGATATCTCA
genomic: TGTTGCAGCAAGTTGTAGAGCAACTTCACAAGCTTGTGAATGTTCTGAAGgtttatctat ... ttgtatttagGTTGAAGATATCTCA
EST: gi|30326336|gb|CD009598.1|CD009598
EST:     TGTTGCAGCAAGTTGTAGAGCAACTTCACAAGCTTGTGAATGTTCTGAAG                         GTTGAAGATATCTCAACTGAGCCGCATGTAGAACGTGAACTGATGCTCATA
genomic: TGTTGCAGCAAGTTGTAGAGCAACTTCACAAGCTTGTGAATGTTCTGAAGgtttatctat ... ttgtatttagGTTGAAGATATCTCAACTGAGCCGCATGTAGAACGTGAACTGATGCTCATA
EST: gi|294964421|gb|GW838224.1|GW838224
EST:     TGTAGCAGCAAGTTGTAGAGCAACTTCACAAGCTTGTGAATGTTCTGAAG                         GTTGAAGATATCTCAACTGAGCCACATGTAGAACGTGAACTGATGCTCATA
genomic: TGTTGCAGCAAGTTGTAGAGCAACTTCACAAGCTTGTGAATGTTCTGAAGgtttatctat ... ttgtatttagGTTGAAGATATCTCAACTGAGCCGCATGTAGAACGTGAACTGATGCTCATA
EST: gi|37185402|gb|CF604755.1|CF604755
EST:     TGTTGCAGCAAGTTGTAGAGCAACTTCACAAGCTTGTGAATGTTCTGAAG                         GTTGAAGATATCTCAACTGAGCCGCATGTAGAACGTGAACTGATGCTCATA
genomic: TGTTGCAGCAAGTTGTAGAGCAACTTCACAAGCTTGTGAATGTTCTGAAGgtttatctat ... ttgtatttagGTTGAAGATATCTCAACTGAGCCGCATGTAGAACGTGAACTGATGCTCATA
EST: gi|32247510|gb|CD713329.1|CD713329
EST:     TGTTGCAGCAAGTTGTAGAGCAACTTCACAAGCTTGTGAATGTTCTGAAG                         GTTGAAGATATCTCAACTGAGCCGCATGTAGAACGTGAACTGATGCTCATA
genomic: TGTTGCAGCAAGTTGTAGAGCAACTTCACAAGCTTGTGAATGTTCTGAAGgtttatctat ... ttgtatttagGTTGAAGATATCTCAACTGAGCCGCATGTAGAACGTGAACTGATGCTCATA
EST: gi|352772784|gb|FQ473822.1|FQ473822
EST:     TGTTGCAGCAAGTTGTAGAGCAACTTCACAAGCTTGTGAATGTTCTGAAG                         GTTGAAGATATCTCAACTGAGCCGCATGTAGAACGTGAACTGATGCTCATA
genomic: TGTTGCAGCAAGTTGTAGAGCAACTTCACAAGCTTGTGAATGTTCTGAAGgtttatctat ... ttgtatttagGTTGAAGATATCTCAACTGAGCCGCATGTAGAACGTGAACTGATGCTCATA
EST: gi|110708435|gb|EE085972.1|EE085972
EST:     TGTTGCAGCAAGTTGTAGAGCAACTTCACAAGCTTGTGAATGTTCTGAAG                         GTTGAAGATATCTCAACTGAGCCGCATGTAGAACGTGAACTCATGCTCATA
genomic: TGTTGCAGCAAGTTGTAGAGCAACTTCACAAGCTTGTGAATGTTCTGAAGgtttatctat ... ttgtatttagGTTGAAGATATCTCAACTGAGCCGCATGTAGAACGTGAACTGATGCTCATA
EST: gi|110723613|gb|EE101123.1|EE101123
EST:     TGTTGCAGCAAGTTGTAGAGCAACTTCACAAGCTTGTGAATGTTCTGAAG                         GTTGAAGATATCTCAACTGAGCCGCATGTAGAACGTGAACTGATGCTCATA
genomic: TGTTGCAGCAAGTTGTAGAGCAACTTCACAAGCTTGTGAATGTTCTGAAGgtttatctat ... ttgtatttagGTTGAAGATATCTCAACTGAGCCGCATGTAGAACGTGAACTGATGCTCATA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAACAAGGACAAGGCGCTCTTCACTATTGTTGTCTCTGGAACTGAAAGGGTGTTGCAGCAAGTTGTAGAGCAACTTCACAAGCTTGTGAATGTTCTGAAGgtttatctattgcattttctttaatcttttaacatgatatattaattttcaattttcaaccacacagatttgttttttttccattgggaatttttgttct

- - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG