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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTTCCAACCATATTTGAAGTTGTGACAGGAGTTAAGCAACAAAGAGATATGTCTGGTAATCACAACAACAGCAACAAAAGCAAATCAAGTGGGAAGATGgtaaggagcaaacaattttacataattgctttttctttatttcctgcatttatcattacttgtatcaagttacttacctgttgcttgtttggctgctttaaacag

Basic information

species Vitis vinifera
transcript Vv12s0035g01980.t01
intron # 4
splice site 5'
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|110391709|gb|EC956705.1|EC956705
EST:     TGTCTGGTAATCACAACAACAGCAACAAAAGCAAATCAAGTGGGAAGATG                         TCTCGGCAACCTGAACCCCAGACCAAGGGAGTAAAGGTGTCTCCTCCATCC
genomic: TGTCTGGTAATCACAACAACAGCAACAAAAGCAAATCAAGTGGGAAGATGgtaaggagca ... ctttaaacagTCTCGGCAACCTGAACCCCAGACCAAGGGAGTAAAGGTGTCTCCTCCATCC
EST: gi|110712767|gb|EE088111.1|EE088111
EST:     TGTCTGGTAATCACCACAACAGCAACAAA-GCAAATCAGGTGGGAAAAAG                         TCTCCGCAACC
genomic: TGTCTGGTAATCACAACAACAGCAACAAAAGCAAATCAAGTGGGAAGATGgtaaggagca ... ctttaaacagTCTCGGCAACC
EST: gi|30296195|gb|CB972989.1|CB972989
EST:     TGTCTGGTAATCACAACAACAGCAACAAAAGCAAATCAAGTGGGAAGATG                         TCTCGGCAACCTGAACCCCAGACCAAGGGAGTAAAGGTGTCTCCTCCATCC
genomic: TGTCTGGTAATCACAACAACAGCAACAAAAGCAAATCAAGTGGGAAGATGgtaaggagca ... ctttaaacagTCTCGGCAACCTGAACCCCAGACCAAGGGAGTAAAGGTGTCTCCTCCATCC
EST: gi|110697832|gb|EE075265.1|EE075265
EST:     TGTCTGGTAATCACAACAACAGCAACAAAAGCAAATCAAGTGGGAAGATG                         TCTCGGCAACCTGAACCCCAGACCAAGGGAGTAAAGGTGTCTCCTCCATCC
genomic: TGTCTGGTAATCACAACAACAGCAACAAAAGCAAATCAAGTGGGAAGATGgtaaggagca ... ctttaaacagTCTCGGCAACCTGAACCCCAGACCAAGGGAGTAAAGGTGTCTCCTCCATCC
EST: gi|110368641|gb|EC932630.1|EC932630
EST:     TGTCTGGTAATCACAACAACAGCAACAAAAGCAAATCAAGTGGGAAGATG                         TCTCGGCAACCTGAACCCCAGACCAAGGGAGTAAAGGTGTCTCCTCCATCC
genomic: TGTCTGGTAATCACAACAACAGCAACAAAAGCAAATCAAGTGGGAAGATGgtaaggagca ... ctttaaacagTCTCGGCAACCTGAACCCCAGACCAAGGGAGTAAAGGTGTCTCCTCCATCC
EST: gi|110702763|gb|EE079018.1|EE079018
EST:     TGTCTGGTAATCACAACAACAGCAACAAAAGCAAATCAAGTGGGAAGATG                         TCTCGGGCA-CCTGAAACCCAGACCAAGGGAGTAAAAGTATCTCC
genomic: TGTCTGGTAATCACAACAACAGCAACAAAAGCAAATCAAGTGGGAAGATGgtaaggagca ... ctttaaacagTCTCGG-CAACCTGAACCCCAGACCAAGGGAGTAAAGGTGTCTCC
EST: gi|33404518|gb|CF210145.1|CF210145
EST:     TGTTTGGTAATCACAACAACAGCAACAAAAGCAAATCAAGTGGGAAGATG                         TCTCGGCAACCTGAACCCCAGACCAGGGGAGTAAAGGTGTCTCCTCCATCC
genomic: TGTCTGGTAATCACAACAACAGCAACAAAAGCAAATCAAGTGGGAAGATGgtaaggagca ... ctttaaacagTCTCGGCAACCTGAACCCCAGACCAAGGGAGTAAAGGTGTCTCCTCCATCC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCTTCCAACCATATTTGAAGTTGTGACAGGAGTTAAGCAACAAAGAGATATGTCTGGTAATCACAACAACAGCAACAAAAGCAAATCAAGTGGGAAGATGgtaaggagcaaacaattttacataattgctttttctttatttcctgcatttatcattacttgtatcaagttacttacctgttgcttgtttggctgctttaaacag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG