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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atggatgtaccgcatggtgggattgttggcttttaaaatgcttatgcacagtgaacaaagatctggatttgagtgttttactgcttttcttgttttgcagTTGCTTTGGTCGTTCTGCTATTCTCAACTTGAGGAAGTGGTTTCACGGCCGTTCCACTTGACCCAGGCAATACCAGGTGCTTCACAGAATCTGGACTATG

Basic information

species Vitis vinifera
transcript Vv01s0010g02050.t01
intron # 9
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|51051641|gb|CO819158.1|CO819158
EST:     CAGATGGCCGCCGGATCCAGAGAAATTTTTTACGTACTGACCCAATACAG                         TTGCTTTGGTCGTTTTGCTATTCTCAACTTGAGGAAGCGGTTTCACGGCCG
genomic: CAGATGGCCGCCGGATCCAGAGAAATTTCTTACGTACTGACCCAATACAGgtaaagattt ... tgttttgcagTTGCTTTGGTCGTTCTGCTATTCTCAACTTGAGGAAGTGGTTTCACGGCCG
EST: gi|110360003|gb|EC922468.1|EC922468
EST:     CAGATGGCCGCCGGATCCAGAGAAATTTCTTACGTACTGACCCAATACAG                         TTGCTTTGGTCGTTCTGCTATTCTCAACTTGAGGAAGCGGTTTCACGGCCG
genomic: CAGATGGCCGCCGGATCCAGAGAAATTTCTTACGTACTGACCCAATACAGgtaaagattt ... tgttttgcagTTGCTTTGGTCGTTCTGCTATTCTCAACTTGAGGAAGTGGTTTCACGGCCG
EST: gi|110402814|gb|EC963524.1|EC963524
EST:     CAGATGGCCGCCGGATCCAGAGAAATTTCTTACGTACTGACCCAATACAG                         TTGCTTTGGTCGTTCTGCTATTCTCAACTTGAGGAAGCGGTTTCACGGCCG
genomic: CAGATGGCCGCCGGATCCAGAGAAATTTCTTACGTACTGACCCAATACAGgtaaagattt ... tgttttgcagTTGCTTTGGTCGTTCTGCTATTCTCAACTTGAGGAAGTGGTTTCACGGCCG
EST: gi|46919623|gb|CN548952.1|CN548952
EST:     CAGATGGCCGCCGGATCCAGAGAAATTTCTTACGTACTGACCCAATACAG                         TTGCTTTGGTCGTTCTGCTATTCTCAACTTGAGGAGGCGGTTTCACGGCCG
genomic: CAGATGGCCGCCGGATCCAGAGAAATTTCTTACGTACTGACCCAATACAGgtaaagattt ... tgttttgcagTTGCTTTGGTCGTTCTGCTATTCTCAACTTGAGGAAGTGGTTTCACGGCCG
EST: gi|110374728|gb|EC939652.1|EC939652
EST:     CAGATGGCCGCCGGATCCAGAGAAATTTCTTACGTACTGACCCAATACAG                         TTGCTTTGGTCGTTCTGCTATTCTCAACTTGAGGAAGCGGTTTCACGGCCG
genomic: CAGATGGCCGCCGGATCCAGAGAAATTTCTTACGTACTGACCCAATACAGgtaaagattt ... tgttttgcagTTGCTTTGGTCGTTCTGCTATTCTCAACTTGAGGAAGTGGTTTCACGGCCG
EST: gi|37186079|gb|CF605432.1|CF605432
EST:     CGGATCCAGAGAAATTTCTTACGTACTGACCCAATACAG                         TTGCTTTGGTCGTTCTGCTATTCTCAACTTGAGGAAGCGGTTTCACGGCCG
genomic: CGGATCCAGAGAAATTTCTTACGTACTGACCCAATACAGgtaaagattt ... tgttttgcagTTGCTTTGGTCGTTCTGCTATTCTCAACTTGAGGAAGTGGTTTCACGGCCG
EST: gi|30252973|gb|CB970524.1|CB970524
EST:     CAGATGGCCGCCGGATCCAGAGAAATTTCTTACGTACTGACCCAATACAG                         TTGCTTTGGTCGTTCTGCTATTCTCAACTTGAGGAAGCGGTTTCACGGCCG
genomic: CAGATGGCCGCCGGATCCAGAGAAATTTCTTACGTACTGACCCAATACAGgtaaagattt ... tgttttgcagTTGCTTTGGTCGTTCTGCTATTCTCAACTTGAGGAAGTGGTTTCACGGCCG
EST: gi|110689997|gb|EE066711.1|EE066711
EST:     CAGATGGCCGCCGGATCCAGAGAAATTTCTTACGTACTGACCCAATACAG                         TTGCTTTGGTCGTTCTGCTATTCTCAACTTGAGGAAGCGGTTTCACGGCCG
genomic: CAGATGGCCGCCGGATCCAGAGAAATTTCTTACGTACTGACCCAATACAGgtaaagattt ... tgttttgcagTTGCTTTGGTCGTTCTGCTATTCTCAACTTGAGGAAGTGGTTTCACGGCCG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcacagtgaacaaagatctggatttgagtgttttactgcttttcttgttttgcagTTGCTTTGGTCGTTCTGCTATTCTCAACTTGAGGAAGTGGTTTCACGGCCGTTCCACTTGACCCAGGCAATACCAGGTGCTTCACAGAATCTGGACTATG
                              ttttactgcttttctt  CT-rich tract
                            tgtttta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
atggatgtaccgcatggtgggattgttggcttttaaaatgcttatgcacagtgaacaaagatctggatttgagtgttttactgcttttcttgttttgcagTTGCTTTGGTCGTTCTGCTATTCTCAACTTGAGGAAGTGGTTTCACGGCCGTTCCACTTGACCCAGGCAATACCAGGTGCTTCACAGAATCTGGACTATG

-tggatgt
- - - - - - - tggtggg
- - - - - - - - - - - -tgttggc
- - - - - - - - - - - - - - - - -taaaatg
- - - - - - - - - - - - - - - - - - - - - tatgcac
- - - - - - - - - - - - - - - - - - - - - - - - - - gaacaaa