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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...attacttttctctaaactatttggaatggaatttaatgttttagaaaatattatgtgtttctgagagcatggtatcctaatctagcatcctatcttgcagCTGGAGGCGTGTGCACATCACTTCTTTGATGATTTAAGAGAGACAAATGCCTGCTTGCCAAATGGTCGGCCTCTTCCTCCTTTATTCAATTTCACACCTC

Basic information

species Vitis vinifera
transcript Vv15s0048g02010.t01
intron # 11
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|349820373|gb|FQ403989.1|FQ403989
EST:     ATCTTGTATCAAGGCTGCTTCAGTATTCGCCAAATTTGAGATGCACCGCC                         CTGGAGGCGTGTGCACATCACTTCTTTGATGATTTAAGAGAGACCAATGCC
genomic: ATCTTGTATCAAGGCTGCTTCAGTATTCGCCAAATTTGAGATGCACCGCCgtatgaaatt ... tatcttgcagCTGGAGGCGTGTGCACATCACTTCTTTGATGATTTAAGAGAGACAAATGCC
EST: gi|30328496|gb|CD011758.1|CD011758
EST:     ATCTTGTATCAAGGCTGCTTCAGTATTCGCCAAATTTGAGATGCACCGCT                         CTGGAGGCATGTGCACATCACTTCTTTGATGATTTAAGAGAGCCAAATGCC
genomic: ATCTTGTATCAAGGCTGCTTCAGTATTCGCCAAATTTGAGATGCACCGCCgtatgaaatt ... tatcttgcagCTGGAGGCGTGTGCACATCACTTCTTTGATGATTTAAGAGAGACAAATGCC
EST: gi|22009072|gb|BQ794106.1|BQ794106
EST:     ATCTTGTATCAAGGCTGCTTCAGTATTCGCCAAATTTGAGATGCACCGCT                         CTGGAGGCGTGTGCACATCACTTCTTTGATGATTTAAGAGAGCCAAATGCC
genomic: ATCTTGTATCAAGGCTGCTTCAGTATTCGCCAAATTTGAGATGCACCGCCgtatgaaatt ... tatcttgcagCTGGAGGCGTGTGCACATCACTTCTTTGATGATTTAAGAGAGACAAATGCC
EST: gi|110382179|gb|EC938698.1|EC938698
EST:     CTTGTATCAAGGCTGCTTCAGTATTCGCCAAATTTGAGATGCACCGCC                         CTGGAGGCGTGTGCACATCACTTCTTTGATGATTTAAGAGAGCCAAATGCC
genomic: CTTGTATCAAGGCTGCTTCAGTATTCGCCAAATTTGAGATGCACCGCCgtatgaaatt ... tatcttgcagCTGGAGGCGTGTGCACATCACTTCTTTGATGATTTAAGAGAGACAAATGCC
EST: gi|110732276|gb|EE107431.1|EE107431
EST:     ATCTTGTATCAAGGCTGCTTCAGTATTCGCCAAATTTGAGATGCACCGCC                         T
genomic: ATCTTGTATCAAGGCTGCTTCAGTATTCGCCAAATTTGAGATGCACCGCCgtatgaaatt ... tatcttgcag-
EST: gi|110732276|gb|EE107431.1|EE107431
EST:     ATCTTGTATCAAGGCTGCTTCAGTATTCGCCAAATTTGAGATGCACCGCC                         T
genomic: ATCTTGTATCAAGGCTGCTTCAGTATTCGCCAAATTTGAGATGCACCGCCgtatgaaatt ... tatcttgcag-
EST: gi|37189535|gb|CF608884.1|CF608884
EST:     ATCTTGTATCAAGGCTGCTTCAGTATTCGCCAAATTTGAGATGCACCGCC                         CTGGAGGCGTGTGCACATCACTTCTTTGATGATTTAAGAGAGACAAATGCC
genomic: ATCTTGTATCAAGGCTGCTTCAGTATTCGCCAAATTTGAGATGCACCGCCgtatgaaatt ... tatcttgcagCTGGAGGCGTGTGCACATCACTTCTTTGATGATTTAAGAGAGACAAATGCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaatattatgtgtttctgagagcatggtatcctaatctagcatcctatcttgcagCTGGAGGCGTGTGCACATCACTTCTTTGATGATTTAAGAGAGACAAATGCCTGCTTGCCAAATGGTCGGCCTCTTCCTCCTTTATTCAATTTCACACCTC
                             tcctaat  putative branch site (score: 2)
                                          tcctatctt  putative PPT
                                taatcta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
attacttttctctaaactatttggaatggaatttaatgttttagaaaatattatgtgtttctgagagcatggtatcctaatctagcatcctatcttgcagCTGGAGGCGTGTGCACATCACTTCTTTGATGATTTAAGAGAGACAAATGCCTGCTTGCCAAATGGTCGGCCTCTTCCTCCTTTATTCAATTTCACACCTC

- - - - - - - - - - - - aatggaa
- - - - - - - - - - - - - - - - - - - - - agaaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcatggt