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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaagcagagctccggtcttctctgttttctccggttttatatttttttctcctttttttctttgcttgaaatttgaaattgggttccctgtgtgatagGGCGGGGAGGTTCCCTTGTCCGAGATGTTCGGGACATTTGCTCTGTCGGTTGGAGCCGCT

Basic information

species Vitis vinifera
transcript Vv16s0050g01090.t01
intron # 1
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|110362018|gb|EC925524.1|EC925524
EST:     CTTCCATGGCTGTTATGGCAGTTTACTACCGGTTTTCATGGCAAATGGAG                         GGCGGGGAGGTTCCCTTGTCCGAGATGTTCGGGACATTTGCTCTGTCAGTT
genomic: CTTCCATGGCTGTTATGGCAGTTTACTACCGGTTTTCATGGCAAATGGAGgtgaagcaga ... tgtgtgatagGGCGGGGAGGTTCCCTTGTCCGAGATGTTCGGGACATTTGCTCTGTCGGTT
EST: gi|110387779|gb|EC952475.1|EC952475
EST:     CTTCCATGGCTGTTATGGCAGTTTACTACCGGTTTTCATGGCAAATGGAG                         GGCGGGGAGGTTCCCTTGTCCGAGATGTTCGGGACATTTGCTCTGTCAGTT
genomic: CTTCCATGGCTGTTATGGCAGTTTACTACCGGTTTTCATGGCAAATGGAGgtgaagcaga ... tgtgtgatagGGCGGGGAGGTTCCCTTGTCCGAGATGTTCGGGACATTTGCTCTGTCGGTT
EST: gi|34549741|gb|CF517973.1|CF517973
EST:     GGCTGTTATGGCAGTTTACTACCGGTTTTCATGGCAAATGGAG                         GGCGGGGAGGTTCCCTTGTCCGAGATGTTCGGGACATTTGCTCTGTCGGTT
genomic: GGCTGTTATGGCAGTTTACTACCGGTTTTCATGGCAAATGGAGgtgaagcaga ... tgtgtgatagGGCGGGGAGGTTCCCTTGTCCGAGATGTTCGGGACATTTGCTCTGTCGGTT
EST: gi|34544824|gb|CF513056.1|CF513056
EST:     GGCTGTTATGGCAGTTTACTACCGGTTTTCATGGCAAATGGAG                         GGCGGGGAGGTTCCCTTGTCCGAGATGTTCGGGACATTTGCTCTGTCGGTT
genomic: GGCTGTTATGGCAGTTTACTACCGGTTTTCATGGCAAATGGAGgtgaagcaga ... tgtgtgatagGGCGGGGAGGTTCCCTTGTCCGAGATGTTCGGGACATTTGCTCTGTCGGTT
EST: gi|110422537|gb|EC988863.1|EC988863
EST:     CTTCCATGGCTGTTATGGCAGTTTACTACCGGTTTTCATGGCAAATGGAG                         GGCGGGGAGGTTCCCTTGTCCGAGATGTTCGGGACATTTGCTCTGTCGGTT
genomic: CTTCCATGGCTGTTATGGCAGTTTACTACCGGTTTTCATGGCAAATGGAGgtgaagcaga ... tgtgtgatagGGCGGGGAGGTTCCCTTGTCCGAGATGTTCGGGACATTTGCTCTGTCGGTT
EST: gi|110388927|gb|EC953729.1|EC953729
EST:     CTTCCATGGCTGTTATGGCAGTTTACTACCGGTTTTCATGGCAAATGGAG                         GGCGGGGAGGTTCCCTTGTCCGAGATGTTCGGGACATTTGCTCTGTCAGTT
genomic: CTTCCATGGCTGTTATGGCAGTTTACTACCGGTTTTCATGGCAAATGGAGgtgaagcaga ... tgtgtgatagGGCGGGGAGGTTCCCTTGTCCGAGATGTTCGGGACATTTGCTCTGTCGGTT
EST: gi|110362556|gb|EC926099.1|EC926099
EST:     CTTCCATGGCTGTTATGGCAGTTTACTACCGGTTTTCATGGCAAATGGAG                         GGCGGGGAGGTTCCCTTGTCCGAGATGTTCGGGACATTTGCTCTGTCAGTT
genomic: CTTCCATGGCTGTTATGGCAGTTTACTACCGGTTTTCATGGCAAATGGAGgtgaagcaga ... tgtgtgatagGGCGGGGAGGTTCCCTTGTCCGAGATGTTCGGGACATTTGCTCTGTCGGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttctcctttttttctttgcttgaaatttgaaattgggttccctgtgtgatagGGCGGGGAGGTTCCCTTGTCCGAGATGTTCGGGACATTTGCTCTGTCGGTTGGAGCCGCT
                                        ttccctgt  CT-rich tract
                      ttgaaatttgaaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgaagcagagctccggtcttctctgttttctccggttttatatttttttctcctttttttctttgcttgaaatttgaaattgggttccctgtgtgatagGGCGGGGAGGTTCCCTTGTCCGAGATGTTCGGGACATTTGCTCTGTCGGTTGGAGCCGCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGGAG