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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cacgtattattattagttgtgtgcatacataaacggatggtggaagttaatagctggtaggatattgtatctttttccaaccttttgtttgatttttcagGCAAGGTGGAGGATGTAAGCAAAGTTCAGACACTACTTTTCAGTGCAACATTACCTGGCTGGGTGAAAGAA

Basic information

species Vitis vinifera
transcript Vv16s0022g02110.t01
intron # 4
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|161720948|gb|FC070676.1|FC070676
EST:     GTTGAAGATGTTGAACTTATTCTAG                         GCAAGGTGGAGGATGTAAGCAAAGTTCAGACACTACTTTTCAGTGCAACAT
genomic: GTTGAAGATGTTGAACTTATTCTAGgtatgttaat ... gatttttcagGCAAGGTGGAGGATGTAAGCAAAGTTCAGACACTACTTTTCAGTGCAACAT
EST: gi|294964618|gb|GW838421.1|GW838421
EST:     TGATGAAATGTTGAGGATGGGTTTTGTTGAAGATGTTGAACTTATTCTAG                         GCAAGGTGGAGGATGTAAGCAAAGTTCAGACACTACTTTTCAGTGCAACAT
genomic: TGATGAAATGTTGAGGATGGGTTTTGTTGAAGATGTTGAACTTATTCTAGgtatgttaat ... gatttttcagGCAAGGTGGAGGATGTAAGCAAAGTTCAGACACTACTTTTCAGTGCAACAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttaatagctggtaggatattgtatctttttccaaccttttgtttgatttttcagGCAAGGTGGAGGATGTAAGCAAAGTTCAGACACTACTTTTCAGTGCAACATTACCTGGCTGGGTGAAAGAA
                                               tttttc  CT-rich tract
                atattgtatcttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cacgtattattattagttgtgtgcatacataaacggatggtggaagttaatagctggtaggatattgtatctttttccaaccttttgtttgatttttcagGCAAGGTGGAGGATGTAAGCAAAGTTCAGACACTACTTTTCAGTGCAACATTACCTGGCTGGGTGAAAGAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - gcataca
- - - - - - - - - - - - - - - aaacgga
- - - - - - - - - - - - - - - - - - -tggtgga
- - - - - - - - - - - - - - - - - - - - - - - - - - - tggtagg