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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gatatatacgagtcacaatatgtttcatatctggtggggtgaataggggggaacggatgagcttaatgccatcttaaccaatcctggcattctgttgtagGGCGTCGGGCCAATCATCCTGTCACCAACTTACCGCCAACATCCTATGGAAGAAAAGACTATGGAAGGATTGCGTAATGTTGAAACTAGCTTAATCTCCA

Basic information

species Vitis vinifera
transcript Vv16s0039g00610.t01
intron # 15
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|110719245|gb|EE096998.1|EE096998
EST:     GGGTC-ACGTTCTCCTGGGA-TAGCTCGT-CAACAATG-CATGTCAGGGG                         GGCGTCGGGCCA-TCATCCTGTCAC-AACTTAC-GCCAACATCC-ATGGAA
genomic: GGGTCCACGTTCTCCTGGGAATAGCTCGTTCAGCAATGGCATGTCATGGGgtaattatcc ... tctgttgtagGGCGTCGGGCCAATCATCCTGTCACCAACTTACCGCCAACATCCTATGGAA
EST: gi|110404417|gb|EC969443.1|EC969443
EST:     GGGTCCACGTTCTCCTGGGAATAGCTCGTTCAGCAATGGCATGTCATGGG                         GGCGTCGGGCCAATCATCCTGTCACCAACTTACCGCCAACATCCTATGGAA
genomic: GGGTCCACGTTCTCCTGGGAATAGCTCGTTCAGCAATGGCATGTCATGGGgtaattatcc ... tctgttgtagGGCGTCGGGCCAATCATCCTGTCACCAACTTACCGCCAACATCCTATGGAA
EST: gi|110719610|gb|EE094888.1|EE094888
EST:     GGGTCCACGTTCTCCTGGGGATAGCTCGTTCAGCAATGGCATGTCATGGG                         GGCGTCGGGCCAATCATCCTGTCACC
genomic: GGGTCCACGTTCTCCTGGGAATAGCTCGTTCAGCAATGGCATGTCATGGGgtaattatcc ... tctgttgtagGGCGTCGGGCCAATCATCCTGTCACC
EST: gi|110414792|gb|EC980648.1|EC980648
EST:     GGGTCCACGTTCTCCTGGGAATAGCTCGTTCAGCAATGGCATGTCATGGG                         GGCGTCGGGCCAATCATCCTGTCACCAACTTACCGCCAACATCCTATGGAA
genomic: GGGTCCACGTTCTCCTGGGAATAGCTCGTTCAGCAATGGCATGTCATGGGgtaattatcc ... tctgttgtagGGCGTCGGGCCAATCATCCTGTCACCAACTTACCGCCAACATCCTATGGAA
EST: gi|110379689|gb|EC944903.1|EC944903
EST:     GGGTCCACGTTCTCCTGGGAATAGCTCGTTCAGCAATGGCATGTCATGGG                         GGCGTCGGGCCAATCATCCTGTCACCAACTTACCGCCAACATCCTATGGAA
genomic: GGGTCCACGTTCTCCTGGGAATAGCTCGTTCAGCAATGGCATGTCATGGGgtaattatcc ... tctgttgtagGGCGTCGGGCCAATCATCCTGTCACCAACTTACCGCCAACATCCTATGGAA
EST: gi|110409593|gb|EC975259.1|EC975259
EST:     GGGTCCACGTTCTCCTGGGAATAGCTCGTTCAGCAATGGCATGTCATGGG                         GGCGTCGGGCCAATCATCCTGTCACCAACTTACCGCCAACATCCTATGGAA
genomic: GGGTCCACGTTCTCCTGGGAATAGCTCGTTCAGCAATGGCATGTCATGGGgtaattatcc ... tctgttgtagGGCGTCGGGCCAATCATCCTGTCACCAACTTACCGCCAACATCCTATGGAA
EST: gi|110718317|gb|EE095014.1|EE095014
EST:     GGGTCCACGTTCTCCTGGGAATAGCTCGTTCAGCAATGGCATGTCATGGA                         GGCGTNCGGGCCA-TCATCCTGTCACCAA
genomic: GGGTCCACGTTCTCCTGGGAATAGCTCGTTCAGCAATGGCATGTCATGGGgtaattatcc ... tctgttgtagGGCGT-CGGGCCAATCATCCTGTCACCAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggggggaacggatgagcttaatgccatcttaaccaatcctggcattctgttgtagGGCGTCGGGCCAATCATCCTGTCACCAACTTACCGCCAACATCCTATGGAAGAAAAGACTATGGAAGGATTGCGTAATGTTGAAACTAGCTTAATCTCCA
                          tcttaac  putative branch site (score: 2)
                                            ttctgtt  putative PPT
                         atcttaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gatatatacgagtcacaatatgtttcatatctggtggggtgaataggggggaacggatgagcttaatgccatcttaaccaatcctggcattctgttgtagGGCGTCGGGCCAATCATCCTGTCACCAACTTACCGCCAACATCCTATGGAAGAAAAGACTATGGAAGGATTGCGTAATGTTGAAACTAGCTTAATCTCCA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG
- - - - - - -cacaata
- - - - - - - - - - - - - - - - ggtgggg
- - - - - - - - - - - - - - - - - - - - - - -gggggga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccaatcc