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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aacaacctattttgcttctataggtccattagattcaagagtttttatgctgggttgagatgtgaatctgagttttaatcagaaatgaatcttgttgcagATGATTTGTTTGACGATACCAGCTCTGAAAGTTCTGCACACTCTGGAAAATATTCCAACTTGAATTACTTTTCTGGCAATGAACACTGTTCCGAAACAAG

Basic information

species Vitis vinifera
transcript Vv06s0004g07920.t01
intron # 6
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|34550373|gb|CF518591.1|CF518591
EST:     CACTTCTCACAGGTTGGACACAATGGCTCAAGGTGGTGATTGGCTCAAAG                         ATGATTTGTTTGATGATACCAGCTCTGAAAGTTCTGCACACTCTGGAAAAT
genomic: CACTTCTCACAGGTTGGACACAATGGCTCAAGGTGGTGATTGGCTCAAAGgtatcaatta ... cttgttgcagATGATTTGTTTGACGATACCAGCTCTGAAAGTTCTGCACACTCTGGAAAAT
EST: gi|30130681|gb|CB916020.1|CB916020
EST:     CACTTCTCACAGGTTGGACACAATGGCTCAAGGTGGTGATTGGCTCANAG                         ATGATTTGTTTGATGATACCAGCTCTGANAGTTCTGCACACTCTGGAAAAT
genomic: CACTTCTCACAGGTTGGACACAATGGCTCAAGGTGGTGATTGGCTCAAAGgtatcaatta ... cttgttgcagATGATTTGTTTGACGATACCAGCTCTGAAAGTTCTGCACACTCTGGAAAAT
EST: gi|37184233|gb|CF603587.1|CF603587
EST:     CACTTCTCACAGGTTGGACACAATGGCTCAAGGTGGTGATTGGCTCAAAG                         ATGATTTGTTTGATGATACCAGCTCTGAAAGTTCTGCACACTCTGGAAAAT
genomic: CACTTCTCACAGGTTGGACACAATGGCTCAAGGTGGTGATTGGCTCAAAGgtatcaatta ... cttgttgcagATGATTTGTTTGACGATACCAGCTCTGAAAGTTCTGCACACTCTGGAAAAT
EST: gi|30136949|gb|CB922287.1|CB922287
EST:     CACTTCTCACAGGTTGGACACAATGGCTCAAGGTGGTGATTGGCTCAAAG                         ATGATTTGTTTGATGATACCAGCTCT
genomic: CACTTCTCACAGGTTGGACACAATGGCTCAAGGTGGTGATTGGCTCAAAGgtatcaatta ... cttgttgcagATGATTTGTTTGACGATACCAGCTCT
EST: gi|37184219|gb|CF603573.1|CF603573
EST:     CACTTCTCACAGGTTGGACACAATGGCTCAAGGTGGTGATTGGCTCAAAG                         ATGATTTGTTTGATGATACCAGCTCTGAAAGTTCTGCACACTCTGGAAAAT
genomic: CACTTCTCACAGGTTGGACACAATGGCTCAAGGTGGTGATTGGCTCAAAGgtatcaatta ... cttgttgcagATGATTTGTTTGACGATACCAGCTCTGAAAGTTCTGCACACTCTGGAAAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatgctgggttgagatgtgaatctgagttttaatcagaaatgaatcttgttgcagATGATTTGTTTGACGATACCAGCTCTGAAAGTTCTGCACACTCTGGAAAATATTCCAACTTGAATTACTTTTCTGGCAATGAACACTGTTCCGAAACAAG
                           ttttaat  putative branch site (score: 3)
                                            tcttgtt  putative PPT
                           ttttaatcagaaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aacaacctattttgcttctataggtccattagattcaagagtttttatgctgggttgagatgtgaatctgagttttaatcagaaatgaatcttgttgcagATGATTTGTTTGACGATACCAGCTCTGAAAGTTCTGCACACTCTGGAAAATATTCCAACTTGAATTACTTTTCTGGCAATGAACACTGTTCCGAAACAAG

aacaacc
- - - - - - tgcttct
- - - - - - - - - - - - -ccattag
- - - - - - - - - - - - - - - - - - - - - - - - - -gggttga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaatgaa