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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tggataaactttggctcaaaggaattctggacctggggcattttaaccctctcaaagaacctcatctgatatagagttcaattttatatttgtcttttagGTGGAGCATTTCTTGGGGATAAAACGCAAGGCTGAACCAAGCAACATGGGCCCACCAAAGAAACCAAAAACCTGAAATTGCATCCGCCGCATTACAGGAG

Basic information

species Vitis vinifera
transcript Vv11s0078g00440.t01
intron # 12
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|33401769|gb|CF207396.1|CF207396
EST:     TTGAGAAGGATGTCCCTGGGAGCTTAACACCCATGCTTGGTGATAGAAAG                         GTGGAGCATTTCTTGGGGATAAAACGCAAGGCTGAACCAAGCAACATGGGC
genomic: TTGAGAAGGATGTCCCTGGGAGCTTAACACCCATGCTTGGCGATAGAAAGgtcagtctac ... tgtcttttagGTGGAGCATTTCTTGGGGATAAAACGCAAGGCTGAACCAAGCAACATGGGC
EST: gi|33401847|gb|CF207474.1|CF207474
EST:     TTGAGAAGGATGTCCCTGGGAGCTTAACACCCATGCTTGGTGATAGAAAG                         GTGGAGCATTTCTTGGGGATAAAACGCAAGGCTGAACCAAGCAACATGGGC
genomic: TTGAGAAGGATGTCCCTGGGAGCTTAACACCCATGCTTGGCGATAGAAAGgtcagtctac ... tgtcttttagGTGGAGCATTTCTTGGGGATAAAACGCAAGGCTGAACCAAGCAACATGGGC
EST: gi|34362752|gb|CF404337.1|CF404337
EST:     TTGAGAAGGATGTCCCTGGGAGCTTAACACCCATGCTTGGTGATAGAAAG                         GTGGAGCATTTCTTGGGGATAAAACGCAAGGCTGAACCAAGCAACATGGGC
genomic: TTGAGAAGGATGTCCCTGGGAGCTTAACACCCATGCTTGGCGATAGAAAGgtcagtctac ... tgtcttttagGTGGAGCATTTCTTGGGGATAAAACGCAAGGCTGAACCAAGCAACATGGGC
EST: gi|110415341|gb|EC981241.1|EC981241
EST:     TTGAGAAGGATGTCCCTGGGAGCTTAACACCCATGCTTGGCGATAGAAAG                         GTGGAGCATTTCTTGGGGATAAAACGCAAGGCTGAACCAAGCAACATGGGC
genomic: TTGAGAAGGATGTCCCTGGGAGCTTAACACCCATGCTTGGCGATAGAAAGgtcagtctac ... tgtcttttagGTGGAGCATTTCTTGGGGATAAAACGCAAGGCTGAACCAAGCAACATGGGC
EST: gi|110366700|gb|EC930616.1|EC930616
EST:     TTGAGAAGGATGTCCCTGGGAGCTTAACACCCATGCTTGGTGATAGAAAG                         GTGGAGCATTTCTTGGGGATAAAACGCAAGGCTGAACCAAGCAACATGGGC
genomic: TTGAGAAGGATGTCCCTGGGAGCTTAACACCCATGCTTGGCGATAGAAAGgtcagtctac ... tgtcttttagGTGGAGCATTTCTTGGGGATAAAACGCAAGGCTGAACCAAGCAACATGGGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

accctctcaaagaacctcatctgatatagagttcaattttatatttgtcttttagGTGGAGCATTTCTTGGGGATAAAACGCAAGGCTGAACCAAGCAACATGGGCCCACCAAAGAAACCAAAAACCTGAAATTGCATCCGCCGCATTACAGGAG
                                           tttgtctttt  CT-rich tract
                       atatagagttcaattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tggataaactttggctcaaaggaattctggacctggggcattttaaccctctcaaagaacctcatctgatatagagttcaattttatatttgtcttttagGTGGAGCATTTCTTGGGGATAAAACGCAAGGCTGAACCAAGCAACATGGGCCCACCAAAGAAACCAAAAACCTGAAATTGCATCCGCCGCATTACAGGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA
-ggataaa
- - - - - - - - -aaaggaa
- - - - - - - - - - - - - - - - - - ggcattt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cctcatc