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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaggctctgtttgattgactaatgatattatttgtattacaaagtaacttgccattattgattgccttcaattttttttgtagCATGCTGCATTAAGGGATATTGCACACTTGGCTGATACAGTCTCCACACAAGGGATGGATTCTCAGCAAACAGAATCAGTGACGAGGATCAGGTACATTG

Basic information

species Vitis vinifera
transcript Vv11s0016g00240.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|351045083|gb|FQ449337.1|FQ449337
EST:     GTAGATTTGTAGGAAGGCTTATACCTTTATCATCAGAGTTTCAGAGAATG                         CATGCTGCATTAAGGGATATTGCACACTTGGCTGATACAGTCTCCACACAA
genomic: GTAGATTTGTAGGAAGGCTTATACCTTTATCATCGGAATTTCAGAGAATGgtaaggctct ... ttttttgtagCATGCTGCATTAAGGGATATTGCACACTTGGCTGATACAGTCTCCACACAA
EST: gi|351039630|gb|FQ461497.1|FQ461497
EST:     GTAGATTTGTAGGAAGGCTTATACCTTTATCATCAGAATTTCAGAGAATG                         CATGCTGCATTAAGGGATATTGCACACTTGGCTGATACAGTCTCCACACAA
genomic: GTAGATTTGTAGGAAGGCTTATACCTTTATCATCGGAATTTCAGAGAATGgtaaggctct ... ttttttgtagCATGCTGCATTAAGGGATATTGCACACTTGGCTGATACAGTCTCCACACAA
EST: gi|351044880|gb|FQ449134.1|FQ449134
EST:     GTAGATTTGTAGGAAGGCTTATACCTTTATCATCAGAATTTCAGAGAATG                         CATGCTGCATTAAGGGATATTGCACACTTGGCTGATACAGTCTCCACACAA
genomic: GTAGATTTGTAGGAAGGCTTATACCTTTATCATCGGAATTTCAGAGAATGgtaaggctct ... ttttttgtagCATGCTGCATTAAGGGATATTGCACACTTGGCTGATACAGTCTCCACACAA
EST: gi|351031831|gb|FQ460088.1|FQ460088
EST:     GTAGATTTGTAGGAAGGCTTATACCTTTATCATCAGAATTTCAGAGAATG                         CATGCTGCATTAAGGGATATTGCACACTTGGCTGGTACAGTCTCCACACAA
genomic: GTAGATTTGTAGGAAGGCTTATACCTTTATCATCGGAATTTCAGAGAATGgtaaggctct ... ttttttgtagCATGCTGCATTAAGGGATATTGCACACTTGGCTGATACAGTCTCCACACAA
EST: gi|349808887|gb|FQ406737.1|FQ406737
EST:     GTAGATTTGTAGGAAGGCTTATACCTTTATCATCAGAATTTCAGAGAATG                         CATGCTGCATTAAGGGATATTGCACACTTGGCTGATACAGTCTCCACACAA
genomic: GTAGATTTGTAGGAAGGCTTATACCTTTATCATCGGAATTTCAGAGAATGgtaaggctct ... ttttttgtagCATGCTGCATTAAGGGATATTGCACACTTGGCTGATACAGTCTCCACACAA
EST: gi|351012093|gb|FQ429899.1|FQ429899
EST:     GTAGATTTGTAGGAAGGCTTATACCTTTATCATCAGAATTTCAGAGAATG                         CATGCTGCATTAAGGGATATTGCACACTTGGCTGATACAGTCTCCACACAA
genomic: GTAGATTTGTAGGAAGGCTTATACCTTTATCATCGGAATTTCAGAGAATGgtaaggctct ... ttttttgtagCATGCTGCATTAAGGGATATTGCACACTTGGCTGATACAGTCTCCACACAA
EST: gi|351013159|gb|FQ424864.1|FQ424864
EST:     GTAGATTTGTAGGAAGGCTTATACCTTTATCATCAGAATTTCAGAGAATG                         CATGCTGCATTAAGGGATATTGCACACTTGGCTGATACAGTCTCCACACAA
genomic: GTAGATTTGTAGGAAGGCTTATACCTTTATCATCGGAATTTCAGAGAATGgtaaggctct ... ttttttgtagCATGCTGCATTAAGGGATATTGCACACTTGGCTGATACAGTCTCCACACAA
EST: gi|352790261|gb|FQ481460.1|FQ481460
EST:     GTAGATTTGTAGGAAGGCTTATTCCTTTATCATCAGAATTTCAGAGAATG                         CATGCTGCATTAAGGGATATTGCACACTTGGCTGATACAGTCTCCACACAA
genomic: GTAGATTTGTAGGAAGGCTTATACCTTTATCATCGGAATTTCAGAGAATGgtaaggctct ... ttttttgtagCATGCTGCATTAAGGGATATTGCACACTTGGCTGATACAGTCTCCACACAA
EST: gi|351019327|gb|FQ429487.1|FQ429487
EST:     GTAGATTTGTAGGAAGGCTTATACCTTTATCATCAAAATTTCAGAGAATG                         CATGCTGCATTAAGGGATATTGCACACTTGGCTGATACAGTCTCCACACAA
genomic: GTAGATTTGTAGGAAGGCTTATACCTTTATCATCGGAATTTCAGAGAATGgtaaggctct ... ttttttgtagCATGCTGCATTAAGGGATATTGCACACTTGGCTGATACAGTCTCCACACAA
EST: gi|30134406|gb|CB919744.1|CB919744
EST:     GTAGATTTGTAGGAAGGCTTATACCTTTATCATCGGAATTTCAGAGAATG                         CATGCTGCATTAAGGGATATTGCACACTTGGCTGATACAGTCTCCACACAA
genomic: GTAGATTTGTAGGAAGGCTTATACCTTTATCATCGGAATTTCAGAGAATGgtaaggctct ... ttttttgtagCATGCTGCATTAAGGGATATTGCACACTTGGCTGATACAGTCTCCACACAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatttgtattacaaagtaacttgccattattgattgccttcaattttttttgtagCATGCTGCATTAAGGGATATTGCACACTTGGCTGATACAGTCTCCACACAAGGGATGGATTCTCAGCAAACAGAATCAGTGACGAGGATCAGGTACATTG
                                    ccttcaatttttttt  CT-rich tract
                                      ttcaattttttttgta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaggctctgtttgattgactaatgatattatttgtattacaaagtaacttgccattattgattgccttcaattttttttgtagCATGCTGCATTAAGGGATATTGCACACTTGGCTGATACAGTCTCCACACAAGGGATGGATTCTCAGCAAACAGAATCAGTGACGAGGATCAGGTACATTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT