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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tatttattgaacttgtttgcttatgtgatattattttacatattttgttgttcactaaaagtggaatggctaacactctgtttttaaaaataattgacagCCATTTGACTGGTTGAAGAAGACCTTTTTGGAGAAGCCAGACCCTGAAGAGAAGTGAATAGGGATGTATGCTGGTAATACTTTCTGATATCATCCATTGG

Basic information

species Vitis vinifera
transcript Vv13s0067g03160.t01
intron # 1
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|32267952|gb|CD717111.1|CD717111
EST:     CTGCCGCATGGGGTGTCGCCGGCGTCACCACCGCCCTCTATCTCGTCCAG                         CCATTTGACTGGTTGA
genomic: CTGCCGCATGGGGTGTCGCCGGCGTCACCACCGCCCTCTATCTCGTCCAGgtatctctat ... taattgacagCCATTTGACTGGTTGA
EST: gi|110425534|gb|EC991922.1|EC991922
EST:     CTGCCGCATGGGGTGTCGCCGGCGTCACCACCGCCCTCTATCTCGTCCAG                         CCATTTGACTGGTTGAAGAAGACCTTTTTGGAGAAGCCAGACCCTGAAGAG
genomic: CTGCCGCATGGGGTGTCGCCGGCGTCACCACCGCCCTCTATCTCGTCCAGgtatctctat ... taattgacagCCATTTGACTGGTTGAAGAAGACCTTTTTGGAGAAGCCAGACCCTGAAGAG
EST: gi|110388977|gb|EC953783.1|EC953783
EST:     CTGCCGCATGGGGTGTCGCCGGCGTCACCACCGCCCTCTATCTCGTCCAG                         CCATTTGACTGGTTGAAGAAGACCTTTTTGGAGAAGCCAGACCCTGAAGAG
genomic: CTGCCGCATGGGGTGTCGCCGGCGTCACCACCGCCCTCTATCTCGTCCAGgtatctctat ... taattgacagCCATTTGACTGGTTGAAGAAGACCTTTTTGGAGAAGCCAGACCCTGAAGAG
EST: gi|110699865|gb|EE077250.1|EE077250
EST:     CTGCCGCATGGGGTGTCGCCGGCGTCACCACCGCCCTCTATCTCGTCCAG                         CCATTTGACTGGTTGAAGAAGACCTTTTTGGAGAAGCCAGACCCTGAAGAG
genomic: CTGCCGCATGGGGTGTCGCCGGCGTCACCACCGCCCTCTATCTCGTCCAGgtatctctat ... taattgacagCCATTTGACTGGTTGAAGAAGACCTTTTTGGAGAAGCCAGACCCTGAAGAG
EST: gi|110428736|gb|EC995215.1|EC995215
EST:     CTGCCGCATGGGGTGTCGCCGGCGTCACCACCGCCCTCTATCTCGTCCAG                         CCATTTGACTGGTTGAAGAAGACCTTTTTGGAGAAGCCAGACCCTGAAGAG
genomic: CTGCCGCATGGGGTGTCGCCGGCGTCACCACCGCCCTCTATCTCGTCCAGgtatctctat ... taattgacagCCATTTGACTGGTTGAAGAAGACCTTTTTGGAGAAGCCAGACCCTGAAGAG
EST: gi|32270302|gb|CD719461.1|CD719461
EST:     CTGCCGCATGGGGTGTCGCCGGCGTCACCACCGCCCTCTATCTCGTCCAG                         CCATTTGACTGGTTGAAGAAGACCTTTTTGGAGAAGCCAGACCCTGAAGAG
genomic: CTGCCGCATGGGGTGTCGCCGGCGTCACCACCGCCCTCTATCTCGTCCAGgtatctctat ... taattgacagCCATTTGACTGGTTGAAGAAGACCTTTTTGGAGAAGCCAGACCCTGAAGAG
EST: gi|110408087|gb|EC973710.1|EC973710
EST:     CTGCCGCATGGGGTGTCGCCGGCGTCACCACCGCCCTCTATCTCGTCCAG                         CCATTTGACTGGTTGAAGAAGACCTTTTTGGAGAAGCCAGACCCTGAAGAG
genomic: CTGCCGCATGGGGTGTCGCCGGCGTCACCACCGCCCTCTATCTCGTCCAGgtatctctat ... taattgacagCCATTTGACTGGTTGAAGAAGACCTTTTTGGAGAAGCCAGACCCTGAAGAG
EST: gi|110386248|gb|EC950829.1|EC950829
EST:     CTGCCGCATGGGGTGTCGCCGGCGTCACCACCGCCCTCTATCTCGTCCAG                         CCATTTGACTGGTTGAAGAAGACCTTTTTGGAGAAGCCAGACCCTGAAGAG
genomic: CTGCCGCATGGGGTGTCGCCGGCGTCACCACCGCCCTCTATCTCGTCCAGgtatctctat ... taattgacagCCATTTGACTGGTTGAAGAAGACCTTTTTGGAGAAGCCAGACCCTGAAGAG
EST: gi|110385908|gb|EC950468.1|EC950468
EST:     CTGCCGCATGGGGTGTCGCCGGCGTCACCACCGCCCTCTATCTCGTCCAG                         CCATTTGACTGGTTGAAGAAGACCTTTTTGGAGAAGCCAGACCCTGAAGAG
genomic: CTGCCGCATGGGGTGTCGCCGGCGTCACCACCGCCCTCTATCTCGTCCAGgtatctctat ... taattgacagCCATTTGACTGGTTGAAGAAGACCTTTTTGGAGAAGCCAGACCCTGAAGAG
EST: gi|110707285|gb|EE083550.1|EE083550
EST:     CTGCCGCATGGGGTGTCGCCGGCGTCACCACCGCCCTCTATCTCGTCCAG                         CCATTTGACTGGTTGAAGAAGACCTTTTTGGAGAAGCCAGACCCTGAAGAG
genomic: CTGCCGCATGGGGTGTCGCCGGCGTCACCACCGCCCTCTATCTCGTCCAGgtatctctat ... taattgacagCCATTTGACTGGTTGAAGAAGACCTTTTTGGAGAAGCCAGACCCTGAAGAG
EST: gi|30328024|gb|CD011286.1|CD011286
EST:     CTGCCGCATGGGGTGTCGCCGGCGTCACCACCGCCCTCTATCTCGTCCAG                         CCATTTGACTGGTTGAAGAAGACCTTTTTGGAGAAGCCAGACCCTGAAGAG
genomic: CTGCCGCATGGGGTGTCGCCGGCGTCACCACCGCCCTCTATCTCGTCCAGgtatctctat ... taattgacagCCATTTGACTGGTTGAAGAAGACCTTTTTGGAGAAGCCAGACCCTGAAGAG
EST: gi|110396913|gb|EC962619.1|EC962619
EST:     CTGCCGCATGGGGTGTCGCCGGCGTCACCACCGCCCTCTATCTCGTCCAG                         CCATTTGACTGGTTGAAGAAGACCTTTTTGGAGAAGCCAGACCCTGAAGAG
genomic: CTGCCGCATGGGGTGTCGCCGGCGTCACCACCGCCCTCTATCTCGTCCAGgtatctctat ... taattgacagCCATTTGACTGGTTGAAGAAGACCTTTTTGGAGAAGCCAGACCCTGAAGAG
EST: gi|71872225|gb|DT021280.1|DT021280
EST:     CTGCCGCATGGGGTGTCGCCGGCGTCACCACCGCCCTCTATCTCGTCCAG                         CCATTTGACTGGTTGAAGAAGACCTTTTTGGAGAAGCCAGACCCTGAAGAG
genomic: CTGCCGCATGGGGTGTCGCCGGCGTCACCACCGCCCTCTATCTCGTCCAGgtatctctat ... taattgacagCCATTTGACTGGTTGAAGAAGACCTTTTTGGAGAAGCCAGACCCTGAAGAG
EST: gi|110729458|gb|EE105430.1|EE105430
EST:     CTGCCGCATGGGGTGTCGCCGGCGTCACCACCGCCCTCTATCTCGTCCAG                         CCATTTGACTGGTTGAAGAAGACCTTTTTGGAGAAAGCCAGACCCTGAAGA
genomic: CTGCCGCATGGGGTGTCGCCGGCGTCACCACCGCCCTCTATCTCGTCCAGgtatctctat ... taattgacagCCATTTGACTGGTTGAAGAAGACCTTTTTGGAG-AAGCCAGACCCTGAAGA
EST: gi|110413860|gb|EC979674.1|EC979674
EST:     CTGCCGCATGGGGTGTCGCCGGCGTCACCACCGCCCTCTATCTCGTCCAG                         CCATTTGACTGGTTGAAGAAGACCTTTTTGGAGAAGCCAGACCCTGAAGAG
genomic: CTGCCGCATGGGGTGTCGCCGGCGTCACCACCGCCCTCTATCTCGTCCAGgtatctctat ... taattgacagCCATTTGACTGGTTGAAGAAGACCTTTTTGGAGAAGCCAGACCCTGAAGAG
EST: gi|110382239|gb|EC938866.1|EC938866
EST:     CTGCCGCATGGGGTGTCGCCGGCGTCACCACCGCCCTCTATCTCGTCCAG                         CCATTTGACTGGTTGAAGAAGACCTTTTTGGAGAAGCCAGACCCTGAAGAG
genomic: CTGCCGCATGGGGTGTCGCCGGCGTCACCACCGCCCTCTATCTCGTCCAGgtatctctat ... taattgacagCCATTTGACTGGTTGAAGAAGACCTTTTTGGAGAAGCCAGACCCTGAAGAG
EST: gi|110394774|gb|EC960080.1|EC960080
EST:     CTGCCGCATGGGGTGTCGCCGGCGTCACCACCGCCCTCTATCTCGTCCAG                         CCATTTGACTGGTTGAAGAAGACCTTTTTGGAGAAGCCAGACCCTGAAGAG
genomic: CTGCCGCATGGGGTGTCGCCGGCGTCACCACCGCCCTCTATCTCGTCCAGgtatctctat ... taattgacagCCATTTGACTGGTTGAAGAAGACCTTTTTGGAGAAGCCAGACCCTGAAGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgttgttcactaaaagtggaatggctaacactctgtttttaaaaataattgacagCCATTTGACTGGTTGAAGAAGACCTTTTTGGAGAAGCCAGACCCTGAAGAGAAGTGAATAGGGATGTATGCTGGTAATACTTTCTGATATCATCCATTGG
                      ggctaac  putative branch site (score: 2)
                             actctgtttttaaaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tatttattgaacttgtttgcttatgtgatattattttacatattttgttgttcactaaaagtggaatggctaacactctgtttttaaaaataattgacagCCATTTGACTGGTTGAAGAAGACCTTTTTGGAGAAGCCAGACCCTGAAGAGAAGTGAATAGGGATGTATGCTGGTAATACTTTCTGATATCATCCATTGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG
- - - - - - - - - gcttatg
- - - - - - - - - - - - - - - - - - - - - - - - - - -actaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aatggct