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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatggttttctgagcgcttcgaggctttaagattaatttcataatgcttaataactaaacatgagtaaccactgactgctagtgtcttctgtcctgtttgcagGTTGTTGGAGCAATTAAGAGGATCCTGTATGCTACAGATGATAATGCCTCAGTGGTGGCAGAAGCTCAAGCCATGGTGTCTTCCCTTCACCAGGAGGGAG

Basic information

species Vitis vinifera
transcript Vv07s0129g01080.t01
intron # 5
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|110732455|gb|EE107757.1|EE107757
EST:     TGAGGGATATTGAAATTTTGTGCCAGTGTCCAGAGATTGAACACTTTACT                         GTTGTTGGAGC
genomic: TGAGGGATATTGAAATTTTGTGCCAGTGTCCAGAGATTGAACACTTAACTgtatggtttt ... ctgtttgcagGTTGTTGGAGC
EST: gi|34544613|gb|CF512845.1|CF512845
EST:     TGAGGGATATTGAAATTTTGTGCCAGTGTCCAGAGATTGAACACTTAACT                         GTTGTTGGAGCAATTAAGAGGATCCTATATGCTACAGATGATAATGCCTCA
genomic: TGAGGGATATTGAAATTTTGTGCCAGTGTCCAGAGATTGAACACTTAACTgtatggtttt ... ctgtttgcagGTTGTTGGAGCAATTAAGAGGATCCTGTATGCTACAGATGATAATGCCTCA
EST: gi|110702076|gb|EE080376.1|EE080376
EST:     GAGGGATATTGAAATTTTGTGCCAGTGTCCAGAGATCTGA-CACTTTACT                         GTTGTTGGAGCAATTAAGAAGATCCTGTATGCTACAGATGAT
genomic: GAGGGATATTGAAATTTTGTGCCAGTGTCCAGAGAT-TGAACACTTAACTgtatggtttt ... ctgtttgcagGTTGTTGGAGCAATTAAGAGGATCCTGTATGCTACAGATGAT
EST: gi|33406833|gb|CF212460.1|CF212460
EST:     TGAGGGATATTGAAATTTTGTGCCAGTGTCCAGAGATTGAACACTTAACT                         GTTGTTGGAGCAATTAAGAGGATCCTATATGCTACAGATGATAATGCCTCA
genomic: TGAGGGATATTGAAATTTTGTGCCAGTGTCCAGAGATTGAACACTTAACTgtatggtttt ... ctgtttgcagGTTGTTGGAGCAATTAAGAGGATCCTGTATGCTACAGATGATAATGCCTCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taataactaaacatgagtaaccactgactgctagtgtcttctgtcctgtttgcagGTTGTTGGAGCAATTAAGAGGATCCTGTATGCTACAGATGATAATGCCTCAGTGGTGGCAGAAGCTCAAGCCATGGTGTCTTCCCTTCACCAGGAGGGAG
                                    tcttctgtcctgttt  CT-rich tract
       taaacat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatggttttctgagcgcttcgaggctttaagattaatttcataatgcttaataactaaacatgagtaaccactgactgctagtgtcttctgtcctgtttgcagGTTGTTGGAGCAATTAAGAGGATCCTGTATGCTACAGATGATAATGCCTCAGTGGTGGCAGAAGCTCAAGCCATGGTGTCTTCCCTTCACCAGGAGGGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA