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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ccccataccttcgaagccttctaatgctcttaaccactggaaagcgtgttctttttttttttttttttttcattttttaagcttcatcgtctttctgtagGTGGTGGTGGTGGTTATGGACTGCTGAATGGAAGTCCTGAGATGAGATATCCAGGTGGTGCATTTGGTGATGGTTATGGTGGAGTCTGGGGACCATATGA

Basic information

species Vitis vinifera
transcript Vv01s0011g03510.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|34547120|gb|CF515352.1|CF515352
EST:     GAAACTACGAGCTGATCAATTGAACACAGATAGGAGAGCAAGGGGACTAG                         GTGGTGGTGGTGGTTATGGACTGCTGAATGGAAGTCCTGAGATGAGATATC
genomic: GAAACTACGAGCTGATCAATTGAACACAGATAGGAGAGCAAGGGGACTAGgtaactatct ... ctttctgtagGTGGTGGTGGTGGTTATGGACTGCTGAATGGAAGTCCTGAGATGAGATATC
EST: gi|34543017|gb|CF511249.1|CF511249
EST:     GAAACTACGAGCTGATCAATTGAACACAGATAGGAGAGCAAGGGGACTAG                         GTGGTGGTGGTGGTTATGGACTGCTGAATGGAAGTCCTGAGATGAGATATC
genomic: GAAACTACGAGCTGATCAATTGAACACAGATAGGAGAGCAAGGGGACTAGgtaactatct ... ctttctgtagGTGGTGGTGGTGGTTATGGACTGCTGAATGGAAGTCCTGAGATGAGATATC
EST: gi|110361194|gb|EC924649.1|EC924649
EST:     GAAACTACGAGCTGATCAATTGAACACAGATAGGAGAGCAAGGGGACTAG                         GTGGTGGTGGTGGTTATGGACTGCTGAATGGAAGTCCTGAGATGAGATATC
genomic: GAAACTACGAGCTGATCAATTGAACACAGATAGGAGAGCAAGGGGACTAGgtaactatct ... ctttctgtagGTGGTGGTGGTGGTTATGGACTGCTGAATGGAAGTCCTGAGATGAGATATC
EST: gi|34547209|gb|CF515441.1|CF515441
EST:     GAAACTACGAGCTGATCAATTGAACACAGATAGGAGAGCAAGGGGACTAG                         GTGGTGGTGGTGGTTATGGACTGCTGAATGGAAGTCCTGAGATGAGATATC
genomic: GAAACTACGAGCTGATCAATTGAACACAGATAGGAGAGCAAGGGGACTAGgtaactatct ... ctttctgtagGTGGTGGTGGTGGTTATGGACTGCTGAATGGAAGTCCTGAGATGAGATATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgttctttttttttttttttttttcattttttaagcttcatcgtctttctgtagGTGGTGGTGGTGGTTATGGACTGCTGAATGGAAGTCCTGAGATGAGATATCCAGGTGGTGCATTTGGTGATGGTTATGGTGGAGTCTGGGGACCATATGA
                                    cttcatcgtctttct  CT-rich tract
      tttttttttttttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ccccataccttcgaagccttctaatgctcttaaccactggaaagcgtgttctttttttttttttttttttcattttttaagcttcatcgtctttctgtagGTGGTGGTGGTGGTTATGGACTGCTGAATGGAAGTCCTGAGATGAGATATCCAGGTGGTGCATTTGGTGATGGTTATGGTGGAGTCTGGGGACCATATGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- ccatacc
- - - - - - - agccttc
- - - - - - - - - - - aatgctc
- - - - - - - - - - - - - - - - accactg