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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttgttggttattgtttcggagctagtttcctttggaattgtgtttctgtggctgcctatttgctctgcctgttgattgatttgttgggttgaaactgcagTAGGATAATCCTTTATTGGAATTTATCACACGCATGGCTACGTCCCAGGGGAAAGTTTCATATTCTTCCCTTTCTAAGCTAGAGAAGGGAAATACCAACT

Basic information

species Vitis vinifera
transcript Vv11s0016g00400.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|161707298|gb|FC055149.1|FC055149
EST:     ATTGAAGTTATCTTGAAATCATTTGCAGGATTCACTATTTTATATTTGAG                         TAGGATAATCCTTTATTGGAATTTATCACACGCATGGCTACGTCCCAGGGG
genomic: ATTGAAGTTATCTTGAAATCATTTGCAGGATTCACTATTTTATATTTGAGgtaggctact ... gaaactgcagTAGGATAATCCTTTATTGGAATTTATCACACGCATGGCTACGTCCCAGGGG
EST: gi|33404416|gb|CF210043.1|CF210043
EST:     ATTGAAGTTATCTTGAAATCATTTGCAGGATTCACTATTTTATATTTGAG                         TAGGATAATCCTTTATTGGAATTTATCACACGCATGGCTACGTCCCAGGGG
genomic: ATTGAAGTTATCTTGAAATCATTTGCAGGATTCACTATTTTATATTTGAGgtaggctact ... gaaactgcagTAGGATAATCCTTTATTGGAATTTATCACACGCATGGCTACGTCCCAGGGG
EST: gi|161708625|gb|FC060446.1|FC060446
EST:     ATTGAAGTTATCTTGAAATCATTTGCAGGATTCACTATTTTATATTTGAG                         TAGGATAATCCTTTATTGGAATTTATCACACGCATGGCTACGTCCCAGGGG
genomic: ATTGAAGTTATCTTGAAATCATTTGCAGGATTCACTATTTTATATTTGAGgtaggctact ... gaaactgcagTAGGATAATCCTTTATTGGAATTTATCACACGCATGGCTACGTCCCAGGGG
EST: gi|161718015|gb|FC067569.1|FC067569
EST:     ATTGAAGTTATCTTGAAATCATTTGCAGGATTCACTATTTTATATTTGAG                         TAGGATAATCCTTTATTGGAATTTATCACACGCATGGCTACGTCCCAGGGG
genomic: ATTGAAGTTATCTTGAAATCATTTGCAGGATTCACTATTTTATATTTGAGgtaggctact ... gaaactgcagTAGGATAATCCTTTATTGGAATTTATCACACGCATGGCTACGTCCCAGGGG
EST: gi|110371035|gb|EC934744.1|EC934744
EST:     ATTGAAGTTATCTTGAAATCATTTGCAGGATTCACTATTTTATATTTGAG                         TAGGATAATCCTTTATTGGAATTTATCACACGCATGGCTACGTCCCAGGGG
genomic: ATTGAAGTTATCTTGAAATCATTTGCAGGATTCACTATTTTATATTTGAGgtaggctact ... gaaactgcagTAGGATAATCCTTTATTGGAATTTATCACACGCATGGCTACGTCCCAGGGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgtggctgcctatttgctctgcctgttgattgatttgttgggttgaaactgcagTAGGATAATCCTTTATTGGAATTTATCACACGCATGGCTACGTCCCAGGGGAAAGTTTCATATTCTTCCCTTTCTAAGCTAGAGAAGGGAAATACCAACT
                            gattgat  putative branch site (score: 4)
                             attgattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttgttggttattgtttcggagctagtttcctttggaattgtgtttctgtggctgcctatttgctctgcctgttgattgatttgttgggttgaaactgcagTAGGATAATCCTTTATTGGAATTTATCACACGCATGGCTACGTCCCAGGGGAAAGTTTCATATTCTTCCCTTTCTAAGCTAGAGAAGGGAAATACCAACT

-tgttggt
- - - - - - - - - - - - - - - - - - - - - - - - - gctgcct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cctgttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgttggg