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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tccagtgatttaaaccagcaatcttctcataggctctgtggattgtttcgttttagaaatgcgtataagcatgcatgaatttctttctttttctgggcagAAATCGGAGCATATGGTTTCAAGGCTAAGGCTGCAGGGAGATTAAAGGACTTCCTCATCACGAGGCTAGGAGCATATGGTTGGTGCGGGGAGTTTACTGA

Basic information

species Vitis vinifera
transcript Vv05s0049g01520.t01
intron # 3
splice site 3'
intron type U2

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|30125734|gb|CB911073.1|CB911073
EST:     ATCGTGTGGTCTTGACGTTTGATGGGAAGTATTTGCCTCATACAGAGCAG                         AAATCGGAGCATATGGTTTCAAGGCTAAGGCTGCAGGGAGATTAAAGGACT
genomic: ATCGTGTGGTCTTGACGTTTGATGGGAAGTATTTGCCTCATACAGAGCAGgtcagttgca ... ttctgggcagAAATCGGAGCATATGGTTTCAAGGCTAAGGCTGCAGGGAGATTAAAGGACT
EST: gi|351031752|gb|FQ460009.1|FQ460009
EST:     ATCGTGTGGTCTTGACGTTTGATGGGAAGTATTTGCCTCATACAGAGCAG                         AAATCGGAGCATATGGTTTCAAGGCTAAGGCTGCAGGGAGATTAAAGGACT
genomic: ATCGTGTGGTCTTGACGTTTGATGGGAAGTATTTGCCTCATACAGAGCAGgtcagttgca ... ttctgggcagAAATCGGAGCATATGGTTTCAAGGCTAAGGCTGCAGGGAGATTAAAGGACT
EST: gi|30297048|gb|CB973842.1|CB973842
EST:     ATCGTGTGGTCTTGACGTTTGATGGGAAGTATTTGCCTCATACAGAGCAG                         AAATCGGAGCATATGGTTTCAAGGTTAAGGCTGCAGGGAGATTAAAGGACT
genomic: ATCGTGTGGTCTTGACGTTTGATGGGAAGTATTTGCCTCATACAGAGCAGgtcagttgca ... ttctgggcagAAATCGGAGCATATGGTTTCAAGGCTAAGGCTGCAGGGAGATTAAAGGACT
EST: gi|351018751|gb|FQ425653.1|FQ425653
EST:     ATTGTGTGGTCTTGACGTTTGATGGGAAGTATTTGCCTCATACAGAGCAG                         AAATCGGAGCATATGGTTTCAAGGCTAAGGCTGCAGGGAGATTAAAGGACT
genomic: ATCGTGTGGTCTTGACGTTTGATGGGAAGTATTTGCCTCATACAGAGCAGgtcagttgca ... ttctgggcagAAATCGGAGCATATGGTTTCAAGGCTAAGGCTGCAGGGAGATTAAAGGACT
EST: gi|110399295|gb|EC965794.1|EC965794
EST:     ATCGTGTGGTCTTGACGTTTGATGGGAAGTATTTGCCTCATACAGAGCAG                         AAATCGGAGCATATGGTTTCAAGGCTAAGGCTGCAGGGAGATTAAAGGACT
genomic: ATCGTGTGGTCTTGACGTTTGATGGGAAGTATTTGCCTCATACAGAGCAGgtcagttgca ... ttctgggcagAAATCGGAGCATATGGTTTCAAGGCTAAGGCTGCAGGGAGATTAAAGGACT
EST: gi|22014889|gb|BQ799923.1|BQ799923
EST:     ATCGTGTGGTCTTGACGTTTGATGGGAAGTATTTGCCTCATACAGAGCAG                         AAATCGGAGCATATGGTTTCAAGGCTAAGGCTGCAGGGAGATTAAAGGACT
genomic: ATCGTGTGGTCTTGACGTTTGATGGGAAGTATTTGCCTCATACAGAGCAGgtcagttgca ... ttctgggcagAAATCGGAGCATATGGTTTCAAGGCTAAGGCTGCAGGGAGATTAAAGGACT
EST: gi|26263703|gb|CA814766.1|CA814766
EST:     ATCGTGTGGTCTTGACGTTTGATGGGAAGTATTTGCCTCGTACAGAGCAG                         AAATCGGAGCATATGGTTTCAAGGCTAAGGCTGCAGGGAGATTAAAGGACT
genomic: ATCGTGTGGTCTTGACGTTTGATGGGAAGTATTTGCCTCATACAGAGCAGgtcagttgca ... ttctgggcagAAATCGGAGCATATGGTTTCAAGGCTAAGGCTGCAGGGAGATTAAAGGACT
EST: gi|30132704|gb|CB918043.1|CB918043
EST:     ATCGTGTGGTCTTGACGTTTGATGGGAAGTATTTGCCTCATACAGAGCAG                         AAATCGGAGCATATGGTTTCAAGGCTAAGGCTGCAGGGAGATTAAAGGACT
genomic: ATCGTGTGGTCTTGACGTTTGATGGGAAGTATTTGCCTCATACAGAGCAGgtcagttgca ... ttctgggcagAAATCGGAGCATATGGTTTCAAGGCTAAGGCTGCAGGGAGATTAAAGGACT
EST: gi|34549238|gb|CF517470.1|CF517470
EST:     ATCGTGTGGTCTTGACGTTTGATGGGAAGTATTTGCCTCATACAGAGCAG                         AAATCGGAGCATATGGTTTCAAGGCTAAGGCTGCAGGGAGATTAAAGGACT
genomic: ATCGTGTGGTCTTGACGTTTGATGGGAAGTATTTGCCTCATACAGAGCAGgtcagttgca ... ttctgggcagAAATCGGAGCATATGGTTTCAAGGCTAAGGCTGCAGGGAGATTAAAGGACT
EST: gi|110382071|gb|EC938407.1|EC938407
EST:     ATCGTGTGGTCTTGACGTTTGATGGGAAGTATTTGCCTCATACAGAGCAG                         AAATCGGAGCATATGGTTTCAAGGCTAAGGCTGCAGGGAGATTAAAGGACT
genomic: ATCGTGTGGTCTTGACGTTTGATGGGAAGTATTTGCCTCATACAGAGCAGgtcagttgca ... ttctgggcagAAATCGGAGCATATGGTTTCAAGGCTAAGGCTGCAGGGAGATTAAAGGACT
EST: gi|30297110|gb|CB973904.1|CB973904
EST:     ATCGTGTGGTCTTGACGTTTGATGGGAAGTATTTGCCTCATACAGAGCAG                         AAATCGGAGCATATGGTTTCAAGGCTAAGGCTGCAGGGAGATTAAAGGACT
genomic: ATCGTGTGGTCTTGACGTTTGATGGGAAGTATTTGCCTCATACAGAGCAGgtcagttgca ... ttctgggcagAAATCGGAGCATATGGTTTCAAGGCTAAGGCTGCAGGGAGATTAAAGGACT
EST: gi|26265678|gb|CA816741.1|CA816741
EST:     ATCGTGTGGTCTTGACGTTTGATGGGAAGTATTTGCCTCATACAGAGCAG                         AAATCGGAGCATATGGTTTCAAGGCTAAGGCTGCAGGGAGATTAAAGGACT
genomic: ATCGTGTGGTCTTGACGTTTGATGGGAAGTATTTGCCTCATACAGAGCAGgtcagttgca ... ttctgggcagAAATCGGAGCATATGGTTTCAAGGCTAAGGCTGCAGGGAGATTAAAGGACT
EST: gi|26265061|gb|CA816124.1|CA816124
EST:     ATCGTGTGGTCTTGACGTTTGATGGGAAGTATTTGCCTCATACAGAGCAG                         AAATCGGAGCATATGGTTTCAAGGCTAAGGCTGCAGGGAGATTAAAGGACT
genomic: ATCGTGTGGTCTTGACGTTTGATGGGAAGTATTTGCCTCATACAGAGCAGgtcagttgca ... ttctgggcagAAATCGGAGCATATGGTTTCAAGGCTAAGGCTGCAGGGAGATTAAAGGACT
EST: gi|351036307|gb|FQ458682.1|FQ458682
EST:     ATCGTGTGGTCTTGACGTTTGATGGGAAGTATTTGCCTCATACAGAGCAG                         AAATCGGAGCATATGGTTTCAAGGCTAAGGCTGCAGGGAGATTAAAGGACT
genomic: ATCGTGTGGTCTTGACGTTTGATGGGAAGTATTTGCCTCATACAGAGCAGgtcagttgca ... ttctgggcagAAATCGGAGCATATGGTTTCAAGGCTAAGGCTGCAGGGAGATTAAAGGACT
EST: gi|110389318|gb|EC954146.1|EC954146
EST:     ATCGTGTGGTCTTGACGTTTGATGGGAAGTATTTGCCTCATACAGAGCAG                         AAATCGGAGCATATGGTTTCAAGGCTAAGGCTGCAGGGAGATTAAAGGACT
genomic: ATCGTGTGGTCTTGACGTTTGATGGGAAGTATTTGCCTCATACAGAGCAGgtcagttgca ... ttctgggcagAAATCGGAGCATATGGTTTCAAGGCTAAGGCTGCAGGGAGATTAAAGGACT
EST: gi|110421844|gb|EC988147.1|EC988147
EST:     ATCGTGTGGTCTTGACGTTTGATGGGAAGTATTTGCCTCATACAGAGCAG                         AAATCGGAGCATATGGTTTCAAGGCTAAGGCTGCAGGGAGATTAAAGGACT
genomic: ATCGTGTGGTCTTGACGTTTGATGGGAAGTATTTGCCTCATACAGAGCAGgtcagttgca ... ttctgggcagAAATCGGAGCATATGGTTTCAAGGCTAAGGCTGCAGGGAGATTAAAGGACT
EST: gi|26263686|gb|CA814749.1|CA814749
EST:     ATCGTGTGGTCTTGACGTTTGATGGGAAGTATTTGCCTCATACAGAGCAG                         AAATCGGAGCATATGGTTTCAAGGCTAAGGCTGCAGGGAGATTAAAGGACT
genomic: ATCGTGTGGTCTTGACGTTTGATGGGAAGTATTTGCCTCATACAGAGCAGgtcagttgca ... ttctgggcagAAATCGGAGCATATGGTTTCAAGGCTAAGGCTGCAGGGAGATTAAAGGACT
EST: gi|18458542|gb|BM436820.1|BM436820
EST:     ATCGTGTGGTCTTGACGTTTGATGGGAAGTATTTGCCTCATACAGAGCAG                         AAATCGGAGCATATGGTTTCAAGGCTAAGGCTGCAGGGAGATTAAAGGACT
genomic: ATCGTGTGGTCTTGACGTTTGATGGGAAGTATTTGCCTCATACAGAGCAGgtcagttgca ... ttctgggcagAAATCGGAGCATATGGTTTCAAGGCTAAGGCTGCAGGGAGATTAAAGGACT
EST: gi|26265694|gb|CA816757.1|CA816757
EST:     ATCGTGTGGTCTTGACGTTTGATGGGAAGTATTTGCCTCGTACAGAGCAG                         AAATCGGAGCATATGGTTTCAAGGCTAAGGCTGCAGGGAGATTAAAGGACT
genomic: ATCGTGTGGTCTTGACGTTTGATGGGAAGTATTTGCCTCATACAGAGCAGgtcagttgca ... ttctgggcagAAATCGGAGCATATGGTTTCAAGGCTAAGGCTGCAGGGAGATTAAAGGACT
EST: gi|32456795|gb|CD797969.1|CD797969
EST:     CGTGTGGTCTCTTGACGTTTGATGGGAAGTATTTGCCTCATACAGAGCAG                         AAATCGGAGCATATGGTTTCAAGGCTAAGGCTGCAGGGAGATTAAAGGACT
genomic: CGTGTGG--TCTTGACGTTTGATGGGAAGTATTTGCCTCATACAGAGCAGgtcagttgca ... ttctgggcagAAATCGGAGCATATGGTTTCAAGGCTAAGGCTGCAGGGAGATTAAAGGACT
EST: gi|32244959|gb|CD710778.1|CD710778
EST:     ATCGTGTGGTCTTGACGTTTGATGGGAAGTATTTGCCTCATACAGAGCAG                         AAATCGGAGCATATGGTTTCAAGGCTAAGGCTGCAGGGAGATTAAAGGACT
genomic: ATCGTGTGGTCTTGACGTTTGATGGGAAGTATTTGCCTCATACAGAGCAGgtcagttgca ... ttctgggcagAAATCGGAGCATATGGTTTCAAGGCTAAGGCTGCAGGGAGATTAAAGGACT
EST: gi|110426065|gb|EC992462.1|EC992462
EST:     ATCGTGTGGTCTTGACGTTTGATGGGAAGTATTTGCCTCATACAGAGCAG                         AAATCGGAGCATATGGTTTCAAGGCTAAGGCTGCAGGGAGATTAAAGGACT
genomic: ATCGTGTGGTCTTGACGTTTGATGGGAAGTATTTGCCTCATACAGAGCAGgtcagttgca ... ttctgggcagAAATCGGAGCATATGGTTTCAAGGCTAAGGCTGCAGGGAGATTAAAGGACT
EST: gi|351023724|gb|FQ448275.1|FQ448275
EST:     ATCGTGTGGTCTTGACGTTTGATGGGAAGTATTTGCCTCATACAGAGCAG                         AAATCGGAGCATATGGTTTCAAGGCTAAGGCTGCAGGGAGATTAAAGGACT
genomic: ATCGTGTGGTCTTGACGTTTGATGGGAAGTATTTGCCTCATACAGAGCAGgtcagttgca ... ttctgggcagAAATCGGAGCATATGGTTTCAAGGCTAAGGCTGCAGGGAGATTAAAGGACT
EST: gi|26265153|gb|CA816216.1|CA816216
EST:     ATCGTGTGGTCTTGACGTTCGATGGGAAGTATTTGCCTCATACAGAGCAG                         AAATCGGAGCATATGGTTTCAAGGCTAAGGCTGCAGGGAGATTAAAGGACT
genomic: ATCGTGTGGTCTTGACGTTTGATGGGAAGTATTTGCCTCATACAGAGCAGgtcagttgca ... ttctgggcagAAATCGGAGCATATGGTTTCAAGGCTAAGGCTGCAGGGAGATTAAAGGACT
EST: gi|110425697|gb|EC992087.1|EC992087
EST:     ATCGTGTGGTCTTGACGTTTGATGGGAAGTATTTGCCTCATACAGAGCAG                         AAATCGGAGCATATGGTTTCAAGGCTAAGGCTGCAGGGAGATTAAAGGACT
genomic: ATCGTGTGGTCTTGACGTTTGATGGGAAGTATTTGCCTCATACAGAGCAGgtcagttgca ... ttctgggcagAAATCGGAGCATATGGTTTCAAGGCTAAGGCTGCAGGGAGATTAAAGGACT
EST: gi|34363041|gb|CF404626.1|CF404626
EST:     ATCGTGTGGTCTTGACGTTTGATGGGAAGTATTTGCCTCATACAGAGCAG                         AAATCGGAGCATATGGTTTCAAGGCTAAGGCTGCAGGGAGATTAAAGGACT
genomic: ATCGTGTGGTCTTGACGTTTGATGGGAAGTATTTGCCTCATACAGAGCAGgtcagttgca ... ttctgggcagAAATCGGAGCATATGGTTTCAAGGCTAAGGCTGCAGGGAGATTAAAGGACT
EST: gi|77581866|gb|DV219897.1|DV219897
EST:     ATCGTGTGGTCTTGACGTTTGATGGGAAGTATTTGCCTCATACAGAGCAG                         AAATCGGAGCATATGGTTTCAAGGCTAAGGCTGCAGGGAGATTAAAGGACT
genomic: ATCGTGTGGTCTTGACGTTTGATGGGAAGTATTTGCCTCATACAGAGCAGgtcagttgca ... ttctgggcagAAATCGGAGCATATGGTTTCAAGGCTAAGGCTGCAGGGAGATTAAAGGACT
EST: gi|349829185|gb|FQ419679.1|FQ419679
EST:     ATCGTGTGGTCTTGACGTTTGATGGGAAGTATTTGCCTCATACAGAGCAG                         AAATCGGAGCATATGGTTTCAAGGCTAAGGCTGCAGGGAGATTAAAGGACT
genomic: ATCGTGTGGTCTTGACGTTTGATGGGAAGTATTTGCCTCATACAGAGCAGgtcagttgca ... ttctgggcagAAATCGGAGCATATGGTTTCAAGGCTAAGGCTGCAGGGAGATTAAAGGACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttcgttttagaaatgcgtataagcatgcatgaatttctttctttttctgggcagAAATCGGAGCATATGGTTTCAAGGCTAAGGCTGCAGGGAGATTAAAGGACTTCCTCATCACGAGGCTAGGAGCATATGGTTGGTGCGGGGAGTTTACTGA
                                  tttctttctttttct  CT-rich tract
                                aatttctttcttttt  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tccagtgatttaaaccagcaatcttctcataggctctgtggattgtttcgttttagaaatgcgtataagcatgcatgaatttctttctttttctgggcagAAATCGGAGCATATGGTTTCAAGGCTAAGGCTGCAGGGAGATTAAAGGACTTCCTCATCACGAGGCTAGGAGCATATGGTTGGTGCGGGGAGTTTACTGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - -aaaccag
- - - - - - - - - - - cttctca
- - - - - - - - - - - - - - - - - - - tggattg
- - - - - - - - - - - - - - - - - - - - - - - - - - - -gaaatgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcatgca