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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaatttcacctcctcctaatgcaaaaaaaaaaaaaaaaaaaaaaagaaacatctctgtttgagttatagccttatagggtctctgaatcaactaagttgcctttccgtgacatttttggatacagTTACAATCCTGTGCTGCGGGTTGAGATGAACGGAGCCAGCACAACACAAAATGTCAATGGATTCATCCCTGGGTGGATGGTTTGAAACCCAAACTCATGA

Basic information

species Vitis vinifera
transcript Vv01s0011g00110.t01
intron # 7
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|32456404|gb|CD797578.1|CD797578
EST:     TGCAATGCGATAGCACTTTGCAGATTGG                         TTACAATCCTGTGCTGCGGGTTGAGATGAACGGAGCCAGCACAACACAAAA
genomic: TGCAATGCGATAGCACTTTGCAGATTGGgtaaatttca ... ttggatacagTTACAATCCTGTGCTGCGGGTTGAGATGAACGGAGCCAGCACAACACAAAA
EST: gi|27582200|gb|CB004895.1|CB004895
EST:     TCAGAGGACTTTTTCGAGCCTCTGCAATGCGATAGCACTTTGCAGATTGG                         TTACAATCCTGTGCTGCGGGGTGAGATGAACGGAGCCAGCACAACACAAAA
genomic: TCAGAGGACTTTTTCGAGCCTCTGCAATGCGATAGCACTTTGCAGATTGGgtaaatttca ... ttggatacagTTACAATCCTGTGCTGCGGGTTGAGATGAACGGAGCCAGCACAACACAAAA
EST: gi|45771565|gb|CN007417.1|CN007417
EST:     TCAGAGGACTTTTTCGAGCCTCTGCAATGCGATAGCACTCTGCAGATTGG                         TTACAATCCTGTGCTGCGGGTTGAGATGAACGGAGCCAGCACAACACAAAA
genomic: TCAGAGGACTTTTTCGAGCCTCTGCAATGCGATAGCACTTTGCAGATTGGgtaaatttca ... ttggatacagTTACAATCCTGTGCTGCGGGTTGAGATGAACGGAGCCAGCACAACACAAAA
EST: gi|110690068|gb|EE066845.1|EE066845
EST:     TCAGAGGACTTTTTCGAGCCTCTGCAATGCGATAGCACTTTGCAGATTGG                         TTACAATCCTGTGCTGCGGGTTGAGATGAACGGAGCCAGCACAACACAAAA
genomic: TCAGAGGACTTTTTCGAGCCTCTGCAATGCGATAGCACTTTGCAGATTGGgtaaatttca ... ttggatacagTTACAATCCTGTGCTGCGGGTTGAGATGAACGGAGCCAGCACAACACAAAA
EST: gi|30329030|gb|CD012292.1|CD012292
EST:     TCAGAGGACTTTTTCGAGCCTCTGCAATGCGATAGCACTTTGCAGATTGG                         TTACAATCCTGTGCTGCGGGTTGAGATGAACGGAGCCAGCACAACACAAAA
genomic: TCAGAGGACTTTTTCGAGCCTCTGCAATGCGATAGCACTTTGCAGATTGGgtaaatttca ... ttggatacagTTACAATCCTGTGCTGCGGGTTGAGATGAACGGAGCCAGCACAACACAAAA
EST: gi|32456386|gb|CD797560.1|CD797560
EST:     GCAATGCGATAGCACTTTGCAGATTGG                         TTACAATCCTGTGCTGCGGGTTGAGAGATGAACGGAGCCAGCACAACACAA
genomic: GCAATGCGATAGCACTTTGCAGATTGGgtaaatttca ... ttggatacagTTACAATCCTGTGCTGCGGGTT--GAGATGAACGGAGCCAGCACAACACAA
EST: gi|45771279|gb|CN007131.1|CN007131
EST:     TCAGAGGACTTTTTCGAGCCTCTGCAATGCGATAGCACTTTGCAGATTGG                         TTACAATCCTGTGCTGCGGGTTGAGATGAACGGAGCCAGCACAACACAAAA
genomic: TCAGAGGACTTTTTCGAGCCTCTGCAATGCGATAGCACTTTGCAGATTGGgtaaatttca ... ttggatacagTTACAATCCTGTGCTGCGGGTTGAGATGAACGGAGCCAGCACAACACAAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttatagggtctctgaatcaactaagttgcctttccgtgacatttttggatacagTTACAATCCTGTGCTGCGGGTTGAGATGAACGGAGCCAGCACAACACAAAATGTCAATGGATTCATCCCTGGGTGGATGGTTTGAAACCCAAACTCATGA
                                        cattttt  CT-rich tract
                                       acattttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaatttcacctcctcctaatgcaaaaaaaaaaaaaaaaaaaaaaagaaacatctctgtttgagttatagccttatagggtctctgaatcaactaagttgcctttccgtgacatttttggatacagTTACAATCCTGTGCTGCGGGTTGAGATGAACGGAGCCAGCACAACACAAAATGTCAATGGATTCATCCCTGGGTGGATGGTTTGAAACCCAAACTCATGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA