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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctaatcataattttgcagattcttttgctgcattctcttaaacatgagaccagtacaataaaattccaggtatcttatagattatttttgatgcctgcagTTCAATGACATCCTAAATACAATCTTCTCATCACCTCCAACTGTTGCCATTATCGTTGGGACGCTACTTGATAACACACTTGATCCAAGACGCTTCCATG

Basic information

species Vitis vinifera
transcript Vv18s0001g11260.t01
intron # 13
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|110387805|gb|EC952502.1|EC952502
EST:     CACACACAACCACAGATGGTCATGGACCAGTTAAAACAGATGGAGGATGG                         TTCAATGACATCCTAAATACAATCTTCTCATCACCTCCAACTGTTGCCATT
genomic: CACACACAACCACAGATGGTCATGGACCAGTTAAAACAGATGGAGGATGGgtaagttaca ... atgcctgcagTTCAATGACATCCTAAATACAATCTTCTCATCACCTCCAACTGTTGCCATT
EST: gi|22015462|gb|BQ800496.1|BQ800496
EST:     CACACACAACCACAGATGGTCATGGGCCAGTTAAAACAGATGGAGGATGG                         TTCAATGACATCCTAAATACAATCTTCTCATCACCTCCAACTGTTGCCATT
genomic: CACACACAACCACAGATGGTCATGGACCAGTTAAAACAGATGGAGGATGGgtaagttaca ... atgcctgcagTTCAATGACATCCTAAATACAATCTTCTCATCACCTCCAACTGTTGCCATT
EST: gi|27581681|gb|CB004376.1|CB004376
EST:     CACACACAACCACAGATGGTCATGGACCAGTTAAAACAGATGGAGGATGG                         TTCAATGACATCCTAAATACAATCTTCTCATCACCTCCAACTGTTGCCATT
genomic: CACACACAACCACAGATGGTCATGGACCAGTTAAAACAGATGGAGGATGGgtaagttaca ... atgcctgcagTTCAATGACATCCTAAATACAATCTTCTCATCACCTCCAACTGTTGCCATT
EST: gi|110413208|gb|EC978987.1|EC978987
EST:     CACACACAACCACAGATGGTCATGGGCCAGTTAAAACAGATGGAGGATGG                         TTCAATGACATCCTAAATACAATCTTCTCATCACCTCCAACTGTTGCCATT
genomic: CACACACAACCACAGATGGTCATGGACCAGTTAAAACAGATGGAGGATGGgtaagttaca ... atgcctgcagTTCAATGACATCCTAAATACAATCTTCTCATCACCTCCAACTGTTGCCATT
EST: gi|30328659|gb|CD011921.1|CD011921
EST:     CACACACAACCACAGATGGTCATGGACCAGTTAAAACAGATGGAGGATGG                         TTCAATGACATCCTAAATACAATCTTCTCATCACCTCCAACTGTTGCCATT
genomic: CACACACAACCACAGATGGTCATGGACCAGTTAAAACAGATGGAGGATGGgtaagttaca ... atgcctgcagTTCAATGACATCCTAAATACAATCTTCTCATCACCTCCAACTGTTGCCATT
EST: gi|110718405|gb|EE095198.1|EE095198
EST:     CACACACAACCACAGATGGTCATGGGCCAGTTAAAACAGATGGAGGATGG                         TTCAATGACATCCTAAATACAATCTTCTCATCACCTCCAACTGTTGCCA
genomic: CACACACAACCACAGATGGTCATGGACCAGTTAAAACAGATGGAGGATGGgtaagttaca ... atgcctgcagTTCAATGACATCCTAAATACAATCTTCTCATCACCTCCAACTGTTGCCA
EST: gi|110417241|gb|EC983280.1|EC983280
EST:     ATGGGCCAGTTAAAACAGATGGAGGATGG                         TTCAATGACATCCTAAATACAATCTTCTCATCACCTCCAACTGTTGCCATT
genomic: ATGGACCAGTTAAAACAGATGGAGGATGGgtaagttaca ... atgcctgcagTTCAATGACATCCTAAATACAATCTTCTCATCACCTCCAACTGTTGCCATT
EST: gi|110716032|gb|EE090658.1|EE090658
EST:     CACACACAACCACAGATGGTCATGGACCAGTTAAAACAGATGGAGGATGG                         TTCAATGACATCCTAAATACAATCTTCTCATCACCTCCAACTGTTGCCATT
genomic: CACACACAACCACAGATGGTCATGGACCAGTTAAAACAGATGGAGGATGGgtaagttaca ... atgcctgcagTTCAATGACATCCTAAATACAATCTTCTCATCACCTCCAACTGTTGCCATT
EST: gi|110717478|gb|EE093371.1|EE093371
EST:     CACACACAACCACAGATGGTCATGGACCAGTTAAAACAGATGGAGGATGG                         TTCAATGACATCCTAAATACAATCTTTTCATCACTTCCAACTGTTGCCATT
genomic: CACACACAACCACAGATGGTCATGGACCAGTTAAAACAGATGGAGGATGGgtaagttaca ... atgcctgcagTTCAATGACATCCTAAATACAATCTTCTCATCACCTCCAACTGTTGCCATT
EST: gi|51050415|gb|CO818539.1|CO818539
EST:     GGACCAGTTAAAACAGATGGAGGATGG                         TTCAATGACATCCTAAATACAATCTTCTCATCACCTCCAACTGTTGCCATT
genomic: GGACCAGTTAAAACAGATGGAGGATGGgtaagttaca ... atgcctgcagTTCAATGACATCCTAAATACAATCTTCTCATCACCTCCAACTGTTGCCATT
EST: gi|22013116|gb|BQ798150.1|BQ798150
EST:     CACACACAACCACAGATGGTCATGGACCAGTTAAAACAGATGGAGGATGG                         TTCAATGACATCCTAAATACAATCTTCTCATCACCTCCAACTGTTGCCATT
genomic: CACACACAACCACAGATGGTCATGGACCAGTTAAAACAGATGGAGGATGGgtaagttaca ... atgcctgcagTTCAATGACATCCTAAATACAATCTTCTCATCACCTCCAACTGTTGCCATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gagaccagtacaataaaattccaggtatcttatagattatttttgatgcctgcagTTCAATGACATCCTAAATACAATCTTCTCATCACCTCCAACTGTTGCCATTATCGTTGGGACGCTACTTGATAACACACTTGATCCAAGACGCTTCCATG
                                        ttttgat  putative branch site (score: 4)
                         tatcttatagattatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ctaatcataattttgcagattcttttgctgcattctcttaaacatgagaccagtacaataaaattccaggtatcttatagattatttttgatgcctgcagTTCAATGACATCCTAAATACAATCTTCTCATCACCTCCAACTGTTGCCATTATCGTTGGGACGCTACTTGATAACACACTTGATCCAAGACGCTTCCATG

- - - - - - -tgcagat
- - - - - - - - - - -cttttgc
- - - - - - - - - - - - - - -gcattct
- - - - - - - - - - - - - - - - - - - - - catgaga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - aataaaa