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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTTCAAAAATAATTTTTACGAATGGCTCCCAGGACCCCTGGCGACATGCATCCAAACTGACCTCAACCCCGGACAgtgagttctagtaacttaaattagaaattttattattattttttcagtttatatttaattcactataatgcacagcactgtagagtaccttgtcaactga...

Basic information

species Vitis vinifera
transcript Vv04s0023g03020.t01
intron # 10
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv04s0023g03020.t01 (Vitis vinifera), 5'ss of exon 10
lower sequence: GLYMA16G24290.1 (Glycine max), 5'ss of exon 10
GTTCAAAAATAATTTTTACGAATGGCTCCCAGGACCCCTGGCGACATGCATCCAAACTGACCTCAACCCCGGACAgtgagtt-ctagtaacttaaattagaaatt-ttattattattttttcagtttatatttaattcactata----atgcacagcactgtagagtaccttgtcaactga
||||||||||||| ||||| |||||||| || || || ||||| ||||||||||| |  || ||| | || || |||||||| | | | ||||   ||  |  |  | | |   |||  |||| | |   | | ||   || |     ||  | |   || || | | |    |       
GTTCAAAAATAATATTTACAAATGGCTCACAAGATCCTTGGCGCCATGCATCCAAGCAAACTTCATCTCCTGATAgtgagttgccatttacttttcttcaatttagtcaatgacattcattcattatccttgtcatct-ctgtggtggatatatatttctctaaaatccaacatgg-----
















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|22010957|gb|BQ795991.1|BQ795991
EST:     CTCCCAGGACCCCTGGCGACATGCATCCAAACTGACCTCAACCCCGGACA                         TGCCTTCCTTCCTTATTTCTTGTCATAATTGTGGCCATGGAACTGATCTGC
genomic: CTCCCAGGACCCCTGGCGACATGCATCCAAACTGACCTCAACCCCGGACAgtgagttcta ... atattttcagTGCCTTCCTTCCTTATTTCTTGTCATAATTGTGGCCATGGAACTGATCTGC
EST: gi|22011128|gb|BQ796162.1|BQ796162
EST:     CTCCCAGGACCCCTGGCGACATGCATCCAAACTGACCTCAACCCCGGACA                         TGCCTTCCTTCCTTATTTCTTGTCATAATTGTGGCCATGGAACTGATCTGC
genomic: CTCCCAGGACCCCTGGCGACATGCATCCAAACTGACCTCAACCCCGGACAgtgagttcta ... atattttcagTGCCTTCCTTCCTTATTTCTTGTCATAATTGTGGCCATGGAACTGATCTGC
EST: gi|30126977|gb|CB912316.1|CB912316
EST:     CTCCCAGGACCCCTGGCGACATGCATCCAAACTGACCTCAACCCCGGACA                         TGCCTTCCTTCCTTATTTCTTGTCATAATTGTGGCCATGGAACTGACCTGC
genomic: CTCCCAGGACCCCTGGCGACATGCATCCAAACTGACCTCAACCCCGGACAgtgagttcta ... atattttcagTGCCTTCCTTCCTTATTTCTTGTCATAATTGTGGCCATGGAACTGATCTGC
EST: gi|33403028|gb|CF208655.1|CF208655
EST:     CTCCCAGGACCCCTGGCGACATGCATCCAAACTGACCTCAACCCCGGACA                         TGCCTTCCTTCCTTATTTCTTGTCATAATTGTGGCCATGGAACTGATCTGC
genomic: CTCCCAGGACCCCTGGCGACATGCATCCAAACTGACCTCAACCCCGGACAgtgagttcta ... atattttcagTGCCTTCCTTCCTTATTTCTTGTCATAATTGTGGCCATGGAACTGATCTGC
EST: gi|46918655|gb|CN547984.1|CN547984
EST:     CTCCCAGGACCCCTGGCGACATGCATCCAAACTGACCTCAACCCCGGACA                         TGCCTTCCTTCCTTATTTCTTGTCATAATTGTGGCCATGGAACTGATCTGC
genomic: CTCCCAGGACCCCTGGCGACATGCATCCAAACTGACCTCAACCCCGGACAgtgagttcta ... atattttcagTGCCTTCCTTCCTTATTTCTTGTCATAATTGTGGCCATGGAACTGATCTGC
EST: gi|110705809|gb|EE083079.1|EE083079
EST:     CTGACCTCAACCCCGGACA                         TGCCTTCCTTCCTTATTTCTTGTCATAATTGTGGCCATGGAACTGATCTGC
genomic: CTGACCTCAACCCCGGACAgtgagttcta ... atattttcagTGCCTTCCTTCCTTATTTCTTGTCATAATTGTGGCCATGGAACTGATCTGC
EST: gi|110375447|gb|EC940435.1|EC940435
EST:     CTCCCAGGACCCCTGGCGACATGCATCCAAACTGACCTCAACCCCGGACA                         TGCCTTCCTTCCTTATTTCTTGTCATAATTGTGGCCATGGAACTGATCTGC
genomic: CTCCCAGGACCCCTGGCGACATGCATCCAAACTGACCTCAACCCCGGACAgtgagttcta ... atattttcagTGCCTTCCTTCCTTATTTCTTGTCATAATTGTGGCCATGGAACTGATCTGC
EST: gi|71872346|gb|DT021401.1|DT021401
EST:     CTCCCAGGACCCCTGGCGACATGCATCCAAACTGACCTCAACCCCGGACA                         TGCCTTCCTTCCTTATTTCTTGTCATAATTGTGGCCATGGAACTGATCTGC
genomic: CTCCCAGGACCCCTGGCGACATGCATCCAAACTGACCTCAACCCCGGACAgtgagttcta ... atattttcagTGCCTTCCTTCCTTATTTCTTGTCATAATTGTGGCCATGGAACTGATCTGC
EST: gi|22012959|gb|BQ797993.1|BQ797993
EST:     CTCCCAGGACCCCTGGCGACATGCATCCAAACTGACCTCAACCCCGGACA                         TGCCTTCCTTCCTTATTTCTTGTCATAATTGTGGCCATGGAACTGATCTGC
genomic: CTCCCAGGACCCCTGGCGACATGCATCCAAACTGACCTCAACCCCGGACAgtgagttcta ... atattttcagTGCCTTCCTTCCTTATTTCTTGTCATAATTGTGGCCATGGAACTGATCTGC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GTTCAAAAATAATTTTTACGAATGGCTCCCAGGACCCCTGGCGACATGCATCCAAACTGACCTCAACCCCGGACAgtgagttctagtaacttaaattagaaattttattattattttttcagtttatatttaattcactataatgcacagcactgtagagtaccttgtcaactga

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttagaaa