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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgatttaaaccagagaataactcaaatttctgaaactgttatcatgtacttgatggatgttattaatatacttgctgtgctggtggtttttactcacaagCTGAGGGAGTACGTGGATGACACGGAGGACTACATCAACATAATGCTGGATGACAAGCAGAACCATCTCTTGCAAATGGGTGTCATGTTGACAACAGCAA

Basic information

species Vitis vinifera
transcript Vv03s0091g01190.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|110425590|gb|EC991979.1|EC991979
EST:     TGGAGGCATATTTTGTGCAAATTGATGGTACACTGAACAAACTATCCACG                         CTGAGGGAGTACGTGGATGACACGGAGGACTACATCAACATAATGCTGGAT
genomic: TGGAGGCATATTTTGTGCAAATTGATGGTACACTGAACAAACTATCCACGgtatgcaact ... tactcacaagCTGAGGGAGTACGTGGATGACACGGAGGACTACATCAACATAATGCTGGAT
EST: gi|351027956|gb|FQ425857.1|FQ425857
EST:     TGGAGGCATATTTTGTGCAAATTGATGGTACACTGAACAAACTATCCACG                         CTGAGGGAGTACGTGGATGACACGGAGGACTACATCAACATAATGCTGGAT
genomic: TGGAGGCATATTTTGTGCAAATTGATGGTACACTGAACAAACTATCCACGgtatgcaact ... tactcacaagCTGAGGGAGTACGTGGATGACACGGAGGACTACATCAACATAATGCTGGAT
EST: gi|352794343|gb|FQ481574.1|FQ481574
EST:     TGGAGGCATATTTTGTGCAAATTGATGGTACACTGAACAAACTATCCACG                         CTGGGGGAGTACGTGGATGACACGGAGGACTACATCAACATAATGCTGGAT
genomic: TGGAGGCATATTTTGTGCAAATTGATGGTACACTGAACAAACTATCCACGgtatgcaact ... tactcacaagCTGAGGGAGTACGTGGATGACACGGAGGACTACATCAACATAATGCTGGAT
EST: gi|110409686|gb|EC975355.1|EC975355
EST:     TGGAGGCATATTTTGTGCAAATTGATGGTACACTGAACAAACTATCCACG                         CTGAGGGAGTACGTGGATGACACGGAGGACTACATCAACATAATGCTGGAT
genomic: TGGAGGCATATTTTGTGCAAATTGATGGTACACTGAACAAACTATCCACGgtatgcaact ... tactcacaagCTGAGGGAGTACGTGGATGACACGGAGGACTACATCAACATAATGCTGGAT
EST: gi|351023983|gb|FQ423406.1|FQ423406
EST:     TGGAGGCATATTTTGTGCAAATTGATGGTACACTGAACAAACTATCCACG                         CTGAGGGAGTACGTGGATGACACGGAGGACTACATCAACATAATGCTGGAT
genomic: TGGAGGCATATTTTGTGCAAATTGATGGTACACTGAACAAACTATCCACGgtatgcaact ... tactcacaagCTGAGGGAGTACGTGGATGACACGGAGGACTACATCAACATAATGCTGGAT
EST: gi|30324516|gb|CD007778.1|CD007778
EST:     TGGAGGCATATTTTGTGCAAATTGATGGTACACTGAACAAACTATCCACG                         CTGAGGGAGTACGTGGATGACACGGAGGACTACATCAACATAATGCTGGAT
genomic: TGGAGGCATATTTTGTGCAAATTGATGGTACACTGAACAAACTATCCACGgtatgcaact ... tactcacaagCTGAGGGAGTACGTGGATGACACGGAGGACTACATCAACATAATGCTGGAT
EST: gi|161714654|gb|FC063889.1|FC063889
EST:     TGGAGGCATATTTTGTGCAAATTGATGGTACACTGAACAAACTATCCACG                         CTGAGGGAGTACGTGGATGACACGGAGGACTACATCAACATAATGCTGGAT
genomic: TGGAGGCATATTTTGTGCAAATTGATGGTACACTGAACAAACTATCCACGgtatgcaact ... tactcacaagCTGAGGGAGTACGTGGATGACACGGAGGACTACATCAACATAATGCTGGAT
EST: gi|110386295|gb|EC950878.1|EC950878
EST:     TGGAGGCATATTTTGTGCAAATTGATGGTACACTGAACAAACTATCCACG                         CTGAGGGAGTACGTGGATGACACGGAGGACTACATCAACATAATGCTGGAT
genomic: TGGAGGCATATTTTGTGCAAATTGATGGTACACTGAACAAACTATCCACGgtatgcaact ... tactcacaagCTGAGGGAGTACGTGGATGACACGGAGGACTACATCAACATAATGCTGGAT
EST: gi|351016631|gb|FQ424058.1|FQ424058
EST:     TGGAGGCATATTTTGTGCAAATTGATGGTACACTGAACAAACTATCCACG                         CTGAGGGAGTACGTGGATGACACGGAGGACTACATCAACATAATGCTGGAT
genomic: TGGAGGCATATTTTGTGCAAATTGATGGTACACTGAACAAACTATCCACGgtatgcaact ... tactcacaagCTGAGGGAGTACGTGGATGACACGGAGGACTACATCAACATAATGCTGGAT
EST: gi|349829589|gb|FQ421107.1|FQ421107
EST:     TGGAGGCATATTTTGTGCAAATTGATGGTACACTGAACAAACTATCCACG                         CTGAGGGAGTACGTGGATGACACGGAGGACTACATCAACATAATGCTGGAT
genomic: TGGAGGCATATTTTGTGCAAATTGATGGTACACTGAACAAACTATCCACGgtatgcaact ... tactcacaagCTGAGGGAGTACGTGGATGACACGGAGGACTACATCAACATAATGCTGGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtacttgatggatgttattaatatacttgctgtgctggtggtttttactcacaagCTGAGGGAGTACGTGGATGACACGGAGGACTACATCAACATAATGCTGGATGACAAGCAGAACCATCTCTTGCAAATGGGTGTCATGTTGACAACAGCAA
               tattaat  putative branch site (score: 2)
                                         tttttactc  putative PPT
           atgttattaatatact  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgatttaaaccagagaataactcaaatttctgaaactgttatcatgtacttgatggatgttattaatatacttgctgtgctggtggtttttactcacaagCTGAGGGAGTACGTGGATGACACGGAGGACTACATCAACATAATGCTGGATGACAAGCAGAACCATCTCTTGCAAATGGGTGTCATGTTGACAACAGCAA

- - - aaaccag
- - - - - - - gaataac
- - - - - - - - - - - - - - -ctgaaac
- - - - - - - - - - - - - - - - - - - - - catgtac
- - - - - - - - - - - - - - - - - - - - - - - - - tgatgga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tacttgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gtgctgg