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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttggccttctatcctccagtagtgctataactcaattattctaaggaacttgcatggataaatttgtagttgaattttctgatccaagtgaatttaagatttttccaatttcttgccctagttaatgcaagtttagggcatagaatgtgagtgtgattttatttgttcctatcacagGAGTTGCTTTCTGGAGAGACACAAAAGTGTATGGGTACGACTCTCCACTTGCATCTATGAAGGAGTTGCTTTCTGGATCTTGATTTTAACATACTGCTTC

Basic information

species Vitis vinifera
transcript Vv16s0039g00700.t01
intron # 8
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|22008389|gb|BQ793423.1|BQ793423
EST:     TAGCCGGGAATTCTTCTTGGCAGCAACTGTTGGCTTGTATGCCTGGATAG                         GAGTTGCTTTCTGGAGAGACACAAAAGTGTACGGGTACGACTCTCCACTTG
genomic: TAGCCGGGAATTCTTCTTGGCAGCAACTGTTGGCTTGTATGCCTGGATAGgttggccttc ... cctatcacagGAGTTGCTTTCTGGAGAGACACAAAAGTGTATGGGTACGACTCTCCACTTG
EST: gi|30329447|gb|CD012709.1|CD012709
EST:     TAGCCGGGAATTTTTCTTGGCAGCAACTGTTGGATTGTATGCCTGGATAG                         GAGTTGCTTTCTGGAGAGACACAAAAGTGTATGGGTACGACTCTCCACTTG
genomic: TAGCCGGGAATTCTTCTTGGCAGCAACTGTTGGCTTGTATGCCTGGATAGgttggccttc ... cctatcacagGAGTTGCTTTCTGGAGAGACACAAAAGTGTATGGGTACGACTCTCCACTTG
EST: gi|27583660|gb|CB006355.1|CB006355
EST:     TAGCCGGGAATTCTTCTTGGCAGCAACTGTTGGCTTGTATGCCTGGATAG                         GAGTTGCTTTCTGGAGAGACACAAAAGTGTATGGGTACGACTCTCCACTTG
genomic: TAGCCGGGAATTCTTCTTGGCAGCAACTGTTGGCTTGTATGCCTGGATAGgttggccttc ... cctatcacagGAGTTGCTTTCTGGAGAGACACAAAAGTGTATGGGTACGACTCTCCACTTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taatgcaagtttagggcatagaatgtgagtgtgattttatttgttcctatcacagGAGTTGCTTTCTGGAGAGACACAAAAGTGTATGGGTACGACTCTCCACTTGCATCTATGAAGGAGTTGCTTTCTGGATCTTGATTTTAACATACTGCTTC
 agttaat  putative branch site (score: 4)
                                  ttttatttgttcct  putative PPT
                               tgattttatttgtt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttggccttctatcctccagtagtgctataactcaattattctaaggaacttgcatggataaatttgtagttgaattttctgatccaagtgaatttaagatttttccaatttcttgccctagttaatgcaagtttagggcatagaatgtgagtgtgattttatttgttcctatcacagGAGTTGCTTTCTGGAGAGACACAAAAGTGTATGGGTACGACTCTCCACTTGCATCTATGAAGGAGTTGCTTTCTGGATCTTGATTTTAACATACTGCTTC

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