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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tggaattgatccttgtaaaggcaggatatgcaggcttattttggattgtgaatttgacataaaaaaaattcttattggttttggctattggcaatttcagTTATGGGACCCTCATTCTAATCTCCATTTATTGACTTGAAAGTGGGAAGTTTTATTTGAGAAGTTTTTAAACCGAACAATGAGGGGAAGAGCGGATGGAT

Basic information

species Vitis vinifera
transcript Vv05s0049g01180.t01
intron # 1
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|71860347|gb|DT009402.1|DT009402
EST:     TGTCTTTGATTCTTTGATTTTGATTCCGTCTCCAGCCTGTTGCAGATCTC                         TTATGGGACCCTCATTCTAATCTCCATTTATTGACTTGAAAGTGGGAAGTT
genomic: TGTCTTTGATTCTTTGATTTTGATTCCGTCTCCAGCCTGCTGCAGATCTCgtgagttgtt ... gcaatttcagTTATGGGACCCTCATTCTAATCTCCATTTATTGACTTGAAAGTGGGAAGTT
EST: gi|71855436|gb|DT004491.1|DT004491
EST:     TGTCTTTGATTCTTTGATTTTGATTCCGTCTCCAGCCTGCTGCAGATCTC                         TTATGGGACCCTCATTCTAATCTCCATTTATTGACTTGAAAGTGGGAAGTT
genomic: TGTCTTTGATTCTTTGATTTTGATTCCGTCTCCAGCCTGCTGCAGATCTCgtgagttgtt ... gcaatttcagTTATGGGACCCTCATTCTAATCTCCATTTATTGACTTGAAAGTGGGAAGTT
EST: gi|110357412|gb|EC920933.1|EC920933
EST:     TGTCTTTGATTCTTTGATTTTGATTCCGTCTCCAGCCTGCTGCAGATCTC                         TTATGGGACCCTCATTCTAATCTCCATTTATTGACTTGAAAGTGGGAAGTT
genomic: TGTCTTTGATTCTTTGATTTTGATTCCGTCTCCAGCCTGCTGCAGATCTCgtgagttgtt ... gcaatttcagTTATGGGACCCTCATTCTAATCTCCATTTATTGACTTGAAAGTGGGAAGTT
EST: gi|161720939|gb|FC070673.1|FC070673
EST:     TGTCTTTGATTCTTTGATTTTGATTCCGTCTCCAGCCTGCTGCAGATCTC                         TTATGGGACCCTCATTCTAATCTCCATTTATTGACTTGAAAGTGGGAAGTT
genomic: TGTCTTTGATTCTTTGATTTTGATTCCGTCTCCAGCCTGCTGCAGATCTCgtgagttgtt ... gcaatttcagTTATGGGACCCTCATTCTAATCTCCATTTATTGACTTGAAAGTGGGAAGTT
EST: gi|110722017|gb|EE097877.1|EE097877
EST:     TGTCTTTGATTCTTTGATTTTGATTCCGTCTCCAGCCTGCTGCAGATCTC                         TTATGGGACCCTCATTCTAATCTCCATTTATTGACTTGAAAGTGGGAAGTT
genomic: TGTCTTTGATTCTTTGATTTTGATTCCGTCTCCAGCCTGCTGCAGATCTCgtgagttgtt ... gcaatttcagTTATGGGACCCTCATTCTAATCTCCATTTATTGACTTGAAAGTGGGAAGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgtgaatttgacataaaaaaaattcttattggttttggctattggcaatttcagTTATGGGACCCTCATTCTAATCTCCATTTATTGACTTGAAAGTGGGAAGTTTTATTTGAGAAGTTTTTAAACCGAACAATGAGGGGAAGAGCGGATGGAT
      atttgac  putative branch site (score: 4)
     aatttgacataaaaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tggaattgatccttgtaaaggcaggatatgcaggcttattttggattgtgaatttgacataaaaaaaattcttattggttttggctattggcaatttcagTTATGGGACCCTCATTCTAATCTCCATTTATTGACTTGAAAGTGGGAAGTTTTATTTGAGAAGTTTTTAAACCGAACAATGAGGGGAAGAGCGGATGGAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GATGGA
- - - - - ccttgta
- - - - - - - - - -ggcagga
- - - - - - - - - - - - - - -gcaggct
- - - - - - - - - - - - - - - - - - - - -tggattg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tggctat