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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...taataataatataccaacattataatagaaatacttatgattccatacatcagtagtatcatgcaatataagtcttgtatgcatggtgtataaacaatagTTTATATGATATT

Basic information

species Vitis vinifera
transcript Vv12s0055g00710.t01
intron # 9
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|32247401|gb|CD713220.1|CD713220
EST:     ATTCAGTTGAATCTGCTAAAGATATACCCAAGTTCCTTAA                         GTTCTTTG--A-G
genomic: ATTCAGTTGAATCTGCTAAAGATATACCCAAGTTCCTTAAgttctttgag ... taaacaatagTTTATATGATATT
EST: gi|32269098|gb|CD718257.1|CD718257
EST:     ATTCAGTTGAATCTGCTAAAGATATACCCAAGTTCCTTAA                         GTTCTTTG--A-G
genomic: ATTCAGTTGAATCTGCTAAAGATATACCCAAGTTCCTTAAgttctttgag ... taaacaatagTTTATATGATATT
EST: gi|32249664|gb|CD715483.1|CD715483
EST:     ATTCAGTTGAATCTGCTAAAGATATACCCAAGTTCCTTAA                         GTTCTTTG--A-G
genomic: ATTCAGTTGAATCTGCTAAAGATATACCCAAGTTCCTTAAgttctttgag ... taaacaatagTTTATATGATATT
EST: gi|30327654|gb|CD010916.1|CD010916
EST:     ATTCAGTTGAATCTGCTAAAGATATACCCAAGTTCCTTAA                         GTTCTTTG--A-G
genomic: ATTCAGTTGAATCTGCTAAAGATATACCCAAGTTCCTTAAgttctttgag ... taaacaatagTTTATATGATATT
EST: gi|110703791|gb|EE080956.1|EE080956
EST:     AAGCAAATGAATTCAGTTGAATCTGCTAAAGATATACCCAAGTTCCTTAA                         GTTCTTTG--A-G
genomic: AAGCAAATGAATTCAGTTGAATCTGCTAAAGATATACCCAAGTTCCTTAAgttctttgag ... taaacaatagTTTATATGATATT
EST: gi|32249812|gb|CD715631.1|CD715631
EST:     ATTCAGTTGAATCTGCTAAAGATATACCCAAGTTCCTTAA                         GTTCTTTG--A-G
genomic: ATTCAGTTGAATCTGCTAAAGATATACCCAAGTTCCTTAAgttctttgag ... taaacaatagTTTATATGATATT
EST: gi|32270392|gb|CD719551.1|CD719551
EST:     ATTCAGTTGAATCTGCTAAAGATATACCCAAGTTCCTTAA                         GTTCTTTG--A-G
genomic: ATTCAGTTGAATCTGCTAAAGATATACCCAAGTTCCTTAAgttctttgag ... taaacaatagTTTATATGATATT
EST: gi|71859767|gb|DT008822.1|DT008822
EST:     AAGCAAATGAATTCAGTTGAATCTGCTAAAGATATACCCAAGTTCCTTAA                         GTTCTTTGAG---
genomic: AAGCAAATGAATTCAGTTGAATCTGCTAAAGATATACCCAAGTTCCTTAAgttctttgag ... taaacaatagTTTATATGATATT
EST: gi|30325758|gb|CD009020.1|CD009020
EST:     ATTCAGTTGAATCTGCTAAAGATATACCCAAGTTCCTTAA                         GTTCTTTG--A-G
genomic: ATTCAGTTGAATCTGCTAAAGATATACCCAAGTTCCTTAAgttctttgag ... taaacaatagTTTATATGATATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tacatcagtagtatcatgcaatataagtcttgtatgcatggtgtataaacaatagTTTATATGATATT
                                           tataaacaata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
taataataatataccaacattataatagaaatacttatgattccatacatcagtagtatcatgcaatataagtcttgtatgcatggtgtataaacaatagTTTATATGATATT

-aataataa
- - - - - ataccaa
- - - - - - - - - - - - - -gaaatac
- - - - - - - - - - - - - - - - - - - - - ccataca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - tcatgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gtatgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tggtgta