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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttcaactctcttttaagattttcctatattccattttctgccttttatcttgtcaccagttgtagcttttgtatattcttttgtttgggcgatacatgtctgagttgaaattttccctttgcattaatttttttgatcttcaagGTGATTTGAGCAAGGGGGGGAAAGGAGGCAGGGTTCTAAATGGTGAAAAAAGTGCTGTACCAAAACCTCCTGCCCCATTGGAGCTCAGGATTGAGCAAG

Basic information

species Vitis vinifera
transcript Vv00s0194g00020.t01
intron # 4
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|110698716|gb|EE076534.1|EE076534
EST:     TACTAGTTCACTGATGTCTGGTGGGAAGACTGACATCCCAATTGCTAAAG                         GTGATTTGAGCAANNNNNNNAAAGGAGGCAGGGTTCTAAATGGTGAAAAAA
genomic: TACTAGTTCACTGATGTCTGGTGGGAAGACTGACATCCCAATTGCTAAAGgttcaactct ... gatcttcaagGTGATTTGAGCAAGGGGGGGAAAGGAGGCAGGGTTCTAAATGGTGAAAAAA
EST: gi|22013993|gb|BQ799027.1|BQ799027
EST:     TACTAGTTCACTGATGTCTGGTGGGAAGACTGACATCCCAATTGCTAAAG                         GTGATTTGAGCAAGGGGGGCAAAGGAGGCAGGGTTCTAAATGGTGAAAAAA
genomic: TACTAGTTCACTGATGTCTGGTGGGAAGACTGACATCCCAATTGCTAAAGgttcaactct ... gatcttcaagGTGATTTGAGCAAGGGGGGGAAAGGAGGCAGGGTTCTAAATGGTGAAAAAA
EST: gi|161718037|gb|FC067579.1|FC067579
EST:     TACTAGTTCACTGATGTCTGGTGGGAAGACTGACATCCCAATTGCTAAAG                         GTGATTTGAGCAANNNNNNNAAAGGAGGCAGGGTTCTAAATGGTGAAAAAA
genomic: TACTAGTTCACTGATGTCTGGTGGGAAGACTGACATCCCAATTGCTAAAGgttcaactct ... gatcttcaagGTGATTTGAGCAAGGGGGGGAAAGGAGGCAGGGTTCTAAATGGTGAAAAAA
EST: gi|71859719|gb|DT008774.1|DT008774
EST:     TACTGGTTCACTGATGTCTGGTGGGAAGACTGACATCCCAATTGCTAAAG                         GTGATTTGAGCAANNNNNNNAAAGGAGGCAGGGTTCTAAATGGTGAAAAAA
genomic: TACTAGTTCACTGATGTCTGGTGGGAAGACTGACATCCCAATTGCTAAAGgttcaactct ... gatcttcaagGTGATTTGAGCAAGGGGGGGAAAGGAGGCAGGGTTCTAAATGGTGAAAAAA
EST: gi|33409317|gb|CF214944.1|CF214944
EST:     TACTAGTTCACTGATGTCTGGTGGGAAGACTGACATCCCAATTGCTAAAG                         GTGATTTGAGCAANNNNNNNAAAGGAGGCAGGGTTCTAAATGGTGAAAAAA
genomic: TACTAGTTCACTGATGTCTGGTGGGAAGACTGACATCCCAATTGCTAAAGgttcaactct ... gatcttcaagGTGATTTGAGCAAGGGGGGGAAAGGAGGCAGGGTTCTAAATGGTGAAAAAA
EST: gi|30252933|gb|CB970484.1|CB970484
EST:     TACTAGTTCACTGATGTCTGGTGGGAAGACTGACATCCCAATTGCTAAAG                         GTGATTTGAGCAANNNNNNNAAAGGAGGCAGGGTTCTAAATGGTGAAAAAA
genomic: TACTAGTTCACTGATGTCTGGTGGGAAGACTGACATCCCAATTGCTAAAGgttcaactct ... gatcttcaagGTGATTTGAGCAAGGGGGGGAAAGGAGGCAGGGTTCTAAATGGTGAAAAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgatacatgtctgagttgaaattttccctttgcattaatttttttgatcttcaagGTGATTTGAGCAAGGGGGGGAAAGGAGGCAGGGTTCTAAATGGTGAAAAAAGTGCTGTACCAAAACCTCCTGCCCCATTGGAGCTCAGGATTGAGCAAG
                                      tttttttgatcttc  CT-rich tract
                                 attaatttttttgatc  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttcaactctcttttaagattttcctatattccattttctgccttttatcttgtcaccagttgtagcttttgtatattcttttgtttgggcgatacatgtctgagttgaaattttccctttgcattaatttttttgatcttcaagGTGATTTGAGCAAGGGGGGGAAAGGAGGCAGGGTTCTAAATGGTGAAAAAAGTGCTGTACCAAAACCTCCTGCCCCATTGGAGCTCAGGATTGAGCAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG