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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...attgcagatttctgatttatgacattgtccaactaaatcatccttctgaattccgtttctagttttatgtcttaatttgttgaaacatgattctcactagGTTAGGGATGAATTAGAACATCTGCTAGATGATGATGAAGATATGGCTGAGATGTATCTGACTGACAAGATGATCCAACAACACCTTGAAAATTCTTCTG

Basic information

species Vitis vinifera
transcript Vv03s0091g01190.t01
intron # 3
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|351027956|gb|FQ425857.1|FQ425857
EST:     CAAATTAAAAGTCGCTTGGTTGCAATAACTGGGCGTGTTCAAAAG                         GTTAGGGATGAATTAGAACATCTGCTAGATGATGATGAAGATATGGCTGAG
genomic: CAAATTAAAAGTCGCTTGGTTGCAATAACTGGGCGTGTTCAAAAGgttgggtggt ... ttctcactagGTTAGGGATGAATTAGAACATCTGCTAGATGATGATGAAGATATGGCTGAG
EST: gi|352794343|gb|FQ481574.1|FQ481574
EST:     CAAATTAAAAGTCGCTTGGTTGCAATAACTGGGCGTGTTCAAAAG                         GTTAGGGATGAATTAGAACATCTGCTAGATGATGATGAAGATATGGCTGAG
genomic: CAAATTAAAAGTCGCTTGGTTGCAATAACTGGGCGTGTTCAAAAGgttgggtggt ... ttctcactagGTTAGGGATGAATTAGAACATCTGCTAGATGATGATGAAGATATGGCTGAG
EST: gi|351023983|gb|FQ423406.1|FQ423406
EST:     CAAATTAAAAGTCGCTTGGTTGCAATAACTGGGCGTGTTCAAAAG                         GTTAGGGATGAATTAGAACATCTGCTAGATGATGATGAAGATATGGCTGAG
genomic: CAAATTAAAAGTCGCTTGGTTGCAATAACTGGGCGTGTTCAAAAGgttgggtggt ... ttctcactagGTTAGGGATGAATTAGAACATCTGCTAGATGATGATGAAGATATGGCTGAG
EST: gi|37184838|gb|CF604192.1|CF604192
EST:     TCCGTCAAATTAAAAGTCGCTTGGTTGCAATAACTGGGCGTGTTCAAAAG                         GTTAGGGATGAATTAGAACATCTGCTAGATGATGATGAAGATATGGCTGAG
genomic: TCCGTCAAATTAAAAGTCGCTTGGTTGCAATAACTGGGCGTGTTCAAAAGgttgggtggt ... ttctcactagGTTAGGGATGAATTAGAACATCTGCTAGATGATGATGAAGATATGGCTGAG
EST: gi|351016631|gb|FQ424058.1|FQ424058
EST:     CAAATTAAAAGTCGCTTGGTTGCAATAACTGGGCGTGTTCAAAAG                         GTTAGGGATGAATTAGAACATCTGCTAGATGATGATGAAGATATGGCTGAG
genomic: CAAATTAAAAGTCGCTTGGTTGCAATAACTGGGCGTGTTCAAAAGgttgggtggt ... ttctcactagGTTAGGGATGAATTAGAACATCTGCTAGATGATGATGAAGATATGGCTGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgaattccgtttctagttttatgtcttaatttgttgaaacatgattctcactagGTTAGGGATGAATTAGAACATCTGCTAGATGATGATGAAGATATGGCTGAGATGTATCTGACTGACAAGATGATCCAACAACACCTTGAAAATTCTTCTG
                        tcttaat  putative branch site (score: 3)
                                             ttctcact  putative PPT
                 ttttatgtcttaattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
attgcagatttctgatttatgacattgtccaactaaatcatccttctgaattccgtttctagttttatgtcttaatttgttgaaacatgattctcactagGTTAGGGATGAATTAGAACATCTGCTAGATGATGATGAAGATATGGCTGAGATGTATCTGACTGACAAGATGATCCAACAACACCTTGAAAATTCTTCTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- tgcagat
- - - - - - - - - - - - - - ccaacta
- - - - - - - - - - - - - - - - - - -tcatcct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaaacat