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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgatgttggtgatgaccatgacgatgatggggatgatgattttgttggtgatttttgtgatgctattgatgatttgtgatttttcactttctgtttccagAAACCAAAGGCAATGGACAGGATGTACCGCTTGGCTTCGCCCCAGGACCTGATGATACAGCTATTTTCATTGCAAAGGCAACTAAGGACAACTCGGGAGG

Basic information

species Vitis vinifera
transcript Vv03s0038g02940.t01
intron # 6
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|110703756|gb|EE080879.1|EE080879
EST:     GGACTCCGAAGGCTACTGAGAAAGCTATCCTGCCTAAAACAATTGAACGG                         AAACCAAAGGCAATGGACAGGATGTACCGCTTGGCTTCGCCCCAGGACCTG
genomic: GGACTCCGAAGGCTACTGAGAAAGCTATCCTGCCTAAAACAATTGAACGGgtatgctttg ... ctgtttccagAAACCAAAGGCAATGGACAGGATGTACCGCTTGGCTTCGCCCCAGGACCTG
EST: gi|351036968|gb|FQ459490.1|FQ459490
EST:     GGACTCCGAAGGCTACTGAGAAAGCTATCCTGCCTAAAACAATTGAACGG                         AAACCAAAGGCAATGGACAGGATGTACCGCTTGGGCT-CGCCCCAGGACC
genomic: GGACTCCGAAGGCTACTGAGAAAGCTATCCTGCCTAAAACAATTGAACGGgtatgctttg ... ctgtttccagAAACCAAAGGCAATGGACAGGATGTACCGCTTGG-CTTCGCCCCAGGACC
EST: gi|351031899|gb|FQ460156.1|FQ460156
EST:     GACTCCGAAGGCTACTGAGAAAGCTATCCTGCCCTAAAACA-TTGAACGG                         AAACCAAAGGCAATGGA
genomic: GACTCCGAAGGCTACTGAGAAAGCTATCCTGCC-TAAAACAATTGAACGGgtatgctttg ... ctgtttccagAAACCAAAGGCAATGGA
EST: gi|349819681|gb|FQ402618.1|FQ402618
EST:     GGACTCCGAAGGCCACTGAGAAAGCTATCCTGCCTAAAACAATTGAACGG                         AAACCAAAGGCAATGGACAGGATGTACCGCTTGGCTT
genomic: GGACTCCGAAGGCTACTGAGAAAGCTATCCTGCCTAAAACAATTGAACGGgtatgctttg ... ctgtttccagAAACCAAAGGCAATGGACAGGATGTACCGCTTGGCTT
EST: gi|351038681|gb|FQ464547.1|FQ464547
EST:     GGACTCCGAAGGCTACTGAGAAAGCTATCCTGCCTAAAACAATTGAACGG                         AAACCAAAGGCAATGGACAGGATGTACCGCCTGGCTTC
genomic: GGACTCCGAAGGCTACTGAGAAAGCTATCCTGCCTAAAACAATTGAACGGgtatgctttg ... ctgtttccagAAACCAAAGGCAATGGACAGGATGTACCGCTTGGCTTC
EST: gi|351043960|gb|FQ431391.1|FQ431391
EST:     GGACTCCGAAAGCTACTGAGAAAGCTATCCTGCCTAAAACAATTGAACGG                         AAACCAAAGGCAATGGACCGGATGTACCGC
genomic: GGACTCCGAAGGCTACTGAGAAAGCTATCCTGCCTAAAACAATTGAACGGgtatgctttg ... ctgtttccagAAACCAAAGGCAATGGACAGGATGTACCGC
EST: gi|110388627|gb|EC953399.1|EC953399
EST:     GGACTCCGAAGGCTACTGAGAAAGCTATCCTGCCTAAAACAATTGAACGG                         AAACCAAAGGCAATGGACAGGATGTACCGCTTGGCTTCGCCCCAGGACCTG
genomic: GGACTCCGAAGGCTACTGAGAAAGCTATCCTGCCTAAAACAATTGAACGGgtatgctttg ... ctgtttccagAAACCAAAGGCAATGGACAGGATGTACCGCTTGGCTTCGCCCCAGGACCTG
EST: gi|110362103|gb|EC925613.1|EC925613
EST:     GGACTCCGAAGGCTACTGAGAAAGCTATCCTGCCTAAAACAATTGAACGG                         AAACCAAAGGCAATGGACAGGATGTACCGCTTGGCTTCGCCCCAGGACCTG
genomic: GGACTCCGAAGGCTACTGAGAAAGCTATCCTGCCTAAAACAATTGAACGGgtatgctttg ... ctgtttccagAAACCAAAGGCAATGGACAGGATGTACCGCTTGGCTTCGCCCCAGGACCTG
EST: gi|351041811|gb|FQ456021.1|FQ456021
EST:     GGACTCCGAAGGCTACTGAGAAAGCTATCCTGCCTAAAACAATTGAACGG                         AAAACAAAGGCAATGGACAGGATGTACCGCTGGGCTTCGCCCCAGGACCTG
genomic: GGACTCCGAAGGCTACTGAGAAAGCTATCCTGCCTAAAACAATTGAACGGgtatgctttg ... ctgtttccagAAACCAAAGGCAATGGACAGGATGTACCGCTTGGCTTCGCCCCAGGACCTG
EST: gi|110379164|gb|EC944342.1|EC944342
EST:     GGACTCCGAAGGCTACTGAGAAAGCTATCCTGCCTAAAACAATTGAACGG                         AAACCAAAGGCAATGGACAGGATGTACCGCTTGGCTTCGCCCCAGGACCTG
genomic: GGACTCCGAAGGCTACTGAGAAAGCTATCCTGCCTAAAACAATTGAACGGgtatgctttg ... ctgtttccagAAACCAAAGGCAATGGACAGGATGTACCGCTTGGCTTCGCCCCAGGACCTG
EST: gi|351033464|gb|FQ462115.1|FQ462115
EST:     GGACTCCGAAGGCTACTGAGAAAGCTATCCTGCCTAAAACAATTGAACGG                         AAACCAAAGGCAATGGACAGGATGTACCGCTTGGCTTCGCCCCAGGACCTG
genomic: GGACTCCGAAGGCTACTGAGAAAGCTATCCTGCCTAAAACAATTGAACGGgtatgctttg ... ctgtttccagAAACCAAAGGCAATGGACAGGATGTACCGCTTGGCTTCGCCCCAGGACCTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggtgatttttgtgatgctattgatgatttgtgatttttcactttctgtttccagAAACCAAAGGCAATGGACAGGATGTACCGCTTGGCTTCGCCCCAGGACCTGATGATACAGCTATTTTCATTGCAAAGGCAACTAAGGACAACTCGGGAGG
                  tattgat  putative branch site (score: 3)
                                  tttttcactttctgtt  putative PPT
     atttttgt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgatgttggtgatgaccatgacgatgatggggatgatgattttgttggtgatttttgtgatgctattgatgatttgtgatttttcactttctgtttccagAAACCAAAGGCAATGGACAGGATGTACCGCTTGGCTTCGCCCCAGGACCTGATGATACAGCTATTTTCATTGCAAAGGCAACTAAGGACAACTCGGGAGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAAG
- - gttggtg
- - - - - - - -ccatgac
- - - - - - - - - - - - - - ggggatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgatgct