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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaggctggagtggattttaaaagctgtagttatgttttatagattttttcccttatgtgctttgctaacattgactttggcaacttaataactgaagATTTCCATGCTGGTCCAAATGACCTCCGATTTACATTGATGCGCAAGAAACAATCTAGGCAAACAAGGGGTGATGTTGAAGTGCATGAAAGGATGGACTT

Basic information

species Vitis vinifera
transcript Vv14s0066g01890.t01
intron # 3
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|71873377|gb|DT022432.1|DT022432
EST:     ACACCGAGGGGATGAAGGCACGCGGAGTGCAG                         ATTTCCATGCTGGTCCAAATGACCTCCGATTTACATTGATGCGCAAGAAAC
genomic: ACACCGAGGGGATGAAGGCACGCGGAGTGCAGgtaaggctgg ... ataactgaagATTTCCATGCTGGTCCAAATGACCTCCGATTTACATTGATGCGCAAGAAAC
EST: gi|110711037|gb|EE087774.1|EE087774
EST:     ACACCGAGGGGATGAAGGCACGCGGAGTGCAG                         ATTTCCATGCTGGTCCAAATGACCTCCGATTTACATTGATGCGCAAGAAAC
genomic: ACACCGAGGGGATGAAGGCACGCGGAGTGCAGgtaaggctgg ... ataactgaagATTTCCATGCTGGTCCAAATGACCTCCGATTTACATTGATGCGCAAGAAAC
EST: gi|349823112|gb|FQ400091.1|FQ400091
EST:     ACACCGAGGGGATGAAGGCACGCGGAGTGCAG                         ATTTCCATGCTGGTCCAAATGACCTCCGATTTACATTGATGCGCAAGAAAC
genomic: ACACCGAGGGGATGAAGGCACGCGGAGTGCAGgtaaggctgg ... ataactgaagATTTCCATGCTGGTCCAAATGACCTCCGATTTACATTGATGCGCAAGAAAC
EST: gi|33404600|gb|CF210227.1|CF210227
EST:     ACACCGAGGGGATGAAGGCACGCGGAGTGCAG                         ATTTCCATGCTGGTCCAAATGACCTCCGATTTACATTGATGCGCAAGAAAC
genomic: ACACCGAGGGGATGAAGGCACGCGGAGTGCAGgtaaggctgg ... ataactgaagATTTCCATGCTGGTCCAAATGACCTCCGATTTACATTGATGCGCAAGAAAC
EST: gi|161721204|gb|FC070710.1|FC070710
EST:     ACACCGAGGGGATGAAGGCACGCGGAGTGCAG                         ATTTCCATGCTGGTCCAAATGACCTCCGATTTACATTGATGCGCAAGAAAC
genomic: ACACCGAGGGGATGAAGGCACGCGGAGTGCAGgtaaggctgg ... ataactgaagATTTCCATGCTGGTCCAAATGACCTCCGATTTACATTGATGCGCAAGAAAC
EST: gi|349817900|gb|FQ407889.1|FQ407889
EST:     ACACCGAGGGGATGAAGGCACGCGGAGTGCAG                         ATTTCCATGCTGGTCCAAATGACCTCCGATTTACATTGATGCGCAAGAAAC
genomic: ACACCGAGGGGATGAAGGCACGCGGAGTGCAGgtaaggctgg ... ataactgaagATTTCCATGCTGGTCCAAATGACCTCCGATTTACATTGATGCGCAAGAAAC
EST: gi|349820715|gb|FQ408544.1|FQ408544
EST:     ACACCGAGGGGATGAAGGCACGCGGAGTGCAG                         ATTTCCATGCTGGTCCAAATGACCTCCGATTTACATTGATGCGCACGAAAC
genomic: ACACCGAGGGGATGAAGGCACGCGGAGTGCAGgtaaggctgg ... ataactgaagATTTCCATGCTGGTCCAAATGACCTCCGATTTACATTGATGCGCAAGAAAC
EST: gi|349811858|gb|FQ410655.1|FQ410655
EST:     ACACCGAGGGGATGAAGGCACGCGGAGTGCAG                         ATTTCCATGCTGGTCCAAATGACCTCCGATTTACATTGATGCGCAAGAAAC
genomic: ACACCGAGGGGATGAAGGCACGCGGAGTGCAGgtaaggctgg ... ataactgaagATTTCCATGCTGGTCCAAATGACCTCCGATTTACATTGATGCGCAAGAAAC
EST: gi|349807699|gb|FQ402090.1|FQ402090
EST:     ACACCGAGGGGATGAAGGCACGCGGAGTGCAG                         ATTTCCATGCTGGTCCAAATGACCTCCGATTTACATTGATGCGCAAGAAAC
genomic: ACACCGAGGGGATGAAGGCACGCGGAGTGCAGgtaaggctgg ... ataactgaagATTTCCATGCTGGTCCAAATGACCTCCGATTTACATTGATGCGCAAGAAAC
EST: gi|349810933|gb|FQ405921.1|FQ405921
EST:     ACACCGAGGGGATGAAGGCACGCGGAGTGCAG                         ATTTCCATGCTGGTCCAAATGACCTCCGATTTACATTGATGCGCAAGAAAC
genomic: ACACCGAGGGGATGAAGGCACGCGGAGTGCAGgtaaggctgg ... ataactgaagATTTCCATGCTGGTCCAAATGACCTCCGATTTACATTGATGCGCAAGAAAC
EST: gi|349816320|gb|FQ399430.1|FQ399430
EST:     ACACCGAGGGGATGAAGGCACGCGGAGTGCAG                         ATTTCCATGCTGGTCCAAATGACCTCCGATTTACATTGATGCGCAAGAAAC
genomic: ACACCGAGGGGATGAAGGCACGCGGAGTGCAGgtaaggctgg ... ataactgaagATTTCCATGCTGGTCCAAATGACCTCCGATTTACATTGATGCGCAAGAAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attttttcccttatgtgctttgctaacattgactttggcaacttaataactgaagATTTCCATGCTGGTCCAAATGACCTCCGATTTACATTGATGCGCAAGAAACAATCTAGGCAAACAAGGGGTGATGTTGAAGTGCATGAAAGGATGGACTT
                                           taataac  putative branch site (score: 1)
                                       aacttaataa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaggctggagtggattttaaaagctgtagttatgttttatagattttttcccttatgtgctttgctaacattgactttggcaacttaataactgaagATTTCCATGCTGGTCCAAATGACCTCCGATTTACATTGATGCGCAAGAAACAATCTAGGCAAACAAGGGGTGATGTTGAAGTGCATGAAAGGATGGACTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA