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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ccctaccattttgttggtagtagcttaacacgctcagctgtttccttttattatttattgtaatttagttgtgaattttgttttttctattttgatgtagAGTATCAAGAGGAGGATATCCTTCACATGAAGCAAGTTCTTTAGTTGCATTCCGTAATTTTGATGATGAGATGAAACGCCCAGGGATTTGGGAATCAGAA

Basic information

species Vitis vinifera
transcript Vv01s0010g02050.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|71859632|gb|DT008687.1|DT008687
EST:     CCATTACCGGTGATAAGGGAGGCTCTTTATGACGATGCCA---TGT-T--                         AGTATCAAGAGGAGGATATCCTTCACATGAAGCAAGTTCTTTAGTTGCATT
genomic: CCATTACCGGTGATAAGGGAGGCTCTTTATGACGATGCTATGTTGTATGGgtatgtttct ... tttgatgtagAGTATCAAGAGGAGGATATCCTTCACATGAAGCAAGTTCTTTAGTTGCATT
EST: gi|161719853|gb|FC068673.1|FC068673
EST:     CCATTACCGGTGATAAGGGAGGCTCTTTATGACGATGCCATGTT--A-G-                         --TATCAAGAGGAGGATATCCTTCACATGAAGCAAGTTCTTTAGTTGCATT
genomic: CCATTACCGGTGATAAGGGAGGCTCTTTATGACGATGCTATGTTGTATGGgtatgtttct ... tttgatgtagAGTATCAAGAGGAGGATATCCTTCACATGAAGCAAGTTCTTTAGTTGCATT
EST: gi|110732429|gb|EE107710.1|EE107710
EST:     CCATTACCGGTGATAAGGGAGGCTCTTTATGACGATGCCATGTT--A-G-                         --TATCAAGAGGAGGATATCCTTCACATGAAGCAAGTTCTTTAGTTGCATT
genomic: CCATTACCGGTGATAAGGGAGGCTCTTTATGACGATGCTATGTTGTATGGgtatgtttct ... tttgatgtagAGTATCAAGAGGAGGATATCCTTCACATGAAGCAAGTTCTTTAGTTGCATT
EST: gi|71858246|gb|DT007301.1|DT007301
EST:     CCATTACCGGTGATAAGGGAGGCTCTTTATGACGATGCCATGTTGTATGG                         AGTATCAAGAGGAGGATATCCTTCACATGAAGCAAGTTCTTTAGTTGCATT
genomic: CCATTACCGGTGATAAGGGAGGCTCTTTATGACGATGCTATGTTGTATGGgtatgtttct ... tttgatgtagAGTATCAAGAGGAGGATATCCTTCACATGAAGCAAGTTCTTTAGTTGCATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttattatttattgtaatttagttgtgaattttgttttttctattttgatgtagAGTATCAAGAGGAGGATATCCTTCACATGAAGCAAGTTCTTTAGTTGCATTCCGTAATTTTGATGATGAGATGAAACGCCCAGGGATTTGGGAATCAGAA
                                            ttttgat  putative branch site (score: 4)
                              ttttgttttttctatt  CT-rich tract
     ttatttattgtaattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ccctaccattttgttggtagtagcttaacacgctcagctgtttccttttattatttattgtaatttagttgtgaattttgttttttctattttgatgtagAGTATCAAGAGGAGGATATCCTTCACATGAAGCAAGTTCTTTAGTTGCATTCCGTAATTTTGATGATGAGATGAAACGCCCAGGGATTTGGGAATCAGAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATG
ccctacc
- - - - - -tgttggt
- - - - - - - - - - - - - - cacgctc