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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...caacacataatggattttgctgttattttagttctgcagtttttttgctttgctagtatcatctccttaaaagaatttccctggtttttgatgtttgcagGTCAGGAGAATGCAGCTAATGTGAGCTTAGAGGTGTTGAAGGCACTGCCACGCTTGCAAGAAAGAGACCAGTCAAGAGGGGGACGATTTGGAGGTGGTGG

Basic information

species Vitis vinifera
transcript Vv16s0022g02110.t01
intron # 13
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|351046770|gb|FQ454380.1|FQ454380
EST:     TGGTGCAGTGTTTGATGTAGCAACTGAAGACCTGGACGCAATTCTCGCTG                         GTTAGGAGAATGCAGCTAATGTGAGCT
genomic: TGGTGCAGTGTTTGATGTAGCAACTGAAGACCTGGACGCATTTCTCGCTGgtaccttctg ... atgtttgcagGTCAGGAGAATGCAGCTAATGTGAGCT
EST: gi|349818664|gb|FQ403498.1|FQ403498
EST:     TGGTGCAGTGTTTGATGTAGCAACTGAAGACCTGGACGCATTTCTCGCTG                         GTCAGGAGAATGCAG
genomic: TGGTGCAGTGTTTGATGTAGCAACTGAAGACCTGGACGCATTTCTCGCTGgtaccttctg ... atgtttgcagGTCAGGAGAATGCAG
EST: gi|351033398|gb|FQ462049.1|FQ462049
EST:     TGGTGCAGTGTTTGATGTAGCAACTGAAGACCTGGACGCATTTCTCGCTG                         GTTAGGAGAATGCAGCTAATGTGAGCTTAGAGGTGCTGAAGGCACTGCCAC
genomic: TGGTGCAGTGTTTGATGTAGCAACTGAAGACCTGGACGCATTTCTCGCTGgtaccttctg ... atgtttgcagGTCAGGAGAATGCAGCTAATGTGAGCTTAGAGGTGTTGAAGGCACTGCCAC
EST: gi|161720145|gb|FC066753.1|FC066753
EST:     TGGTGCAGTGTTTGATGTAGCAACTGAAGACCTGGACGCATTTCTCGCTG                         GTCAGGAGAATGCAGCTAATGTGAGCTTAGAGGTGTT
genomic: TGGTGCAGTGTTTGATGTAGCAACTGAAGACCTGGACGCATTTCTCGCTGgtaccttctg ... atgtttgcagGTCAGGAGAATGCAGCTAATGTGAGCTTAGAGGTGTT
EST: gi|351039800|gb|FQ464838.1|FQ464838
EST:     TGGTGCAGTGTTTGATGTAGCAACTGAAGACCTGGACGCATTTCTCGCTG                         GTTAGGAGAATGCAGCTAATGTGAGCTTAGAGGTGCTGAAAGCACTGCCA
genomic: TGGTGCAGTGTTTGATGTAGCAACTGAAGACCTGGACGCATTTCTCGCTGgtaccttctg ... atgtttgcagGTCAGGAGAATGCAGCTAATGTGAGCTTAGAGGTGTTGAAGGCACTGCCA
EST: gi|349809274|gb|FQ399048.1|FQ399048
EST:     TGGTGCAGTGTTTGATGTAGCAACTGAAGACCTGGACGCATTTCTCGCTG                         GTCAGGAGAATGCAGCTAATGTGAGCTTAGAGGTGTTGAAGGCACTGCCAC
genomic: TGGTGCAGTGTTTGATGTAGCAACTGAAGACCTGGACGCATTTCTCGCTGgtaccttctg ... atgtttgcagGTCAGGAGAATGCAGCTAATGTGAGCTTAGAGGTGTTGAAGGCACTGCCAC
EST: gi|352798464|gb|FQ480489.1|FQ480489
EST:     TGGTGCAGTGTTTGATGTAGCAACTGAAGACCTGGACGCATTTCTCGCTG                         GTTAGGAGAATGCAGCTAATGTGAGCTTAGAGGTGCTGAAGGCACTGC
genomic: TGGTGCAGTGTTTGATGTAGCAACTGAAGACCTGGACGCATTTCTCGCTGgtaccttctg ... atgtttgcagGTCAGGAGAATGCAGCTAATGTGAGCTTAGAGGTGTTGAAGGCACTGC
EST: gi|110391302|gb|EC956267.1|EC956267
EST:     TGGTGCAGTGTTTGATGTAGCAACTGAAGACCTGGACGCATTTCTCGCTG                         GTCAGGAGAATGCAGCTAATGTGAGCTTAGAGGTGTTGAAGGCACTGCCAC
genomic: TGGTGCAGTGTTTGATGTAGCAACTGAAGACCTGGACGCATTTCTCGCTGgtaccttctg ... atgtttgcagGTCAGGAGAATGCAGCTAATGTGAGCTTAGAGGTGTTGAAGGCACTGCCAC
EST: gi|71870308|gb|DT019363.1|DT019363
EST:     TGGTGCAGTGTTTGATGTAGCAACTGAAGACCTGGACGCATTTCTCGCTG                         GTCAGGAGAATGCAGCTAATGTGAGCTTAGAGGTGTTGAAG
genomic: TGGTGCAGTGTTTGATGTAGCAACTGAAGACCTGGACGCATTTCTCGCTGgtaccttctg ... atgtttgcagGTCAGGAGAATGCAGCTAATGTGAGCTTAGAGGTGTTGAAG
EST: gi|351055609|gb|FQ452074.1|FQ452074
EST:     TGGTGCAGTGTTTGATGTAGCAACTGAAGACCTGGACGCATTTCTCGCTG                         GGT-AGGAGAATGCAGCTAATGTGAGCTTA
genomic: TGGTGCAGTGTTTGATGTAGCAACTGAAGACCTGGACGCATTTCTCGCTGgtaccttctg ... atgtttgcagG-TCAGGAGAATGCAGCTAATGTGAGCTTA
EST: gi|37184768|gb|CF604122.1|CF604122
EST:     TGGTGCAGTGTTTGATGTAGCAACTGAAGACCTGGACGCATTTCTCGCTG                         GTCAGGAGAAT
genomic: TGGTGCAGTGTTTGATGTAGCAACTGAAGACCTGGACGCATTTCTCGCTGgtaccttctg ... atgtttgcagGTCAGGAGAAT
EST: gi|110690637|gb|EE067971.1|EE067971
EST:     TGGTGCAGTGTTTGATGTANCAACTGAAGACCTGGACGCATTTCTCGCTG                         GTCANGAGA-TGCAGCTAATGTGAGCTTAGAGGTGTTGAAGG
genomic: TGGTGCAGTGTTTGATGTAGCAACTGAAGACCTGGACGCATTTCTCGCTGgtaccttctg ... atgtttgcagGTCAGGAGAATGCAGCTAATGTGAGCTTAGAGGTGTTGAAGG
EST: gi|351052845|gb|FQ456573.1|FQ456573
EST:     TGGTGCAGTGTTTGATGTAGCAACTGAAAACCTGGACGCATTTCTCGCTG                         GTCAGGAGAATGCAGCTAATGTGAGCTTAGAGGTGTTGAAGGCACTGCCAC
genomic: TGGTGCAGTGTTTGATGTAGCAACTGAAGACCTGGACGCATTTCTCGCTGgtaccttctg ... atgtttgcagGTCAGGAGAATGCAGCTAATGTGAGCTTAGAGGTGTTGAAGGCACTGCCAC
EST: gi|351035558|gb|FQ463403.1|FQ463403
EST:     TGGTGCAGTGTTTGATGTAGCAACTGAAGACCTGGACGCATTTCTCGCTG                         GTTAGGAGAATGCGGCTAATGTGAGCTTAGAGGTGCTGAAAGCACTGCC
genomic: TGGTGCAGTGTTTGATGTAGCAACTGAAGACCTGGACGCATTTCTCGCTGgtaccttctg ... atgtttgcagGTCAGGAGAATGCAGCTAATGTGAGCTTAGAGGTGTTGAAGGCACTGCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgctttgctagtatcatctccttaaaagaatttccctggtttttgatgtttgcagGTCAGGAGAATGCAGCTAATGTGAGCTTAGAGGTGTTGAAGGCACTGCCACGCTTGCAAGAAAGAGACCAGTCAAGAGGGGGACGATTTGGAGGTGGTGG
                                        ttttgat  putative branch site (score: 4)
                     ttaaaagaattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
caacacataatggattttgctgttattttagttctgcagtttttttgctttgctagtatcatctccttaaaagaatttccctggtttttgatgtttgcagGTCAGGAGAATGCAGCTAATGTGAGCTTAGAGGTGTTGAAGGCACTGCCACGCTTGCAAGAAAGAGACCAGTCAAGAGGGGGACGATTTGGAGGTGGTGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
caacaca
- - - - - - - - -tgctgtt
- - - - - - - - - - - - - - - - tctgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -catctcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaagaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tccctgg