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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...acactggcatttttattatttgcctaagcaattagtcaatttccaggaattaatttttagctgtatgatacttattttgatttgatgaattgggttgcagTTGTGTGTGTGGAGCATTGATGGATGGGAAAAAAGGAAATCGAGGTTTATACAAGCTCCAGCAGGTCGCTCGTCCCCGTTGGTTGGAGACACTAAAGTCC

Basic information

species Vitis vinifera
transcript Vv16s0039g02410.t01
intron # 22
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|71879756|gb|DT028811.1|DT028811
EST:     CGTTTTCCCAAATTCTTAATTGCCTGGTATCTTCTGGGGCTGATGCCCAG                         TTGTGTGTGTGGAGCATTGATGGATGGGAAAAAAGGAAATCGAGATTTA--
genomic: CGTTTTCCCAAATTCTTAATTGCCTGGTATCTTCTGGGGCTGATGCCCAGgtcagtagct ... tgggttgcagTTGTGTGTGTGGAGCATTGATGGATGGGAAAAAAGGAAATCGAGGTTTATA
EST: gi|71878707|gb|DT027762.1|DT027762
EST:     CGTTTTCCCAAATTCTTAATTGCCTGGTATCTTCTGGGGCTGATGCCCAG                         TTGTGTGTGTGGAGCATTGATGGATGGGAAAAAAGGAAATCGAGATTTA--
genomic: CGTTTTCCCAAATTCTTAATTGCCTGGTATCTTCTGGGGCTGATGCCCAGgtcagtagct ... tgggttgcagTTGTGTGTGTGGAGCATTGATGGATGGGAAAAAAGGAAATCGAGGTTTATA
EST: gi|71880708|gb|DT029763.1|DT029763
EST:     CGTTTTCCCAAATTCTTAATTGCCTGGTATCTTCTGGGGCTGATGCCCAG                         TTGTGTGTGTGGAGCATTGATGGATGGGAAAAAAGGAAATCGAGATTTA--
genomic: CGTTTTCCCAAATTCTTAATTGCCTGGTATCTTCTGGGGCTGATGCCCAGgtcagtagct ... tgggttgcagTTGTGTGTGTGGAGCATTGATGGATGGGAAAAAAGGAAATCGAGGTTTATA
EST: gi|71879963|gb|DT029018.1|DT029018
EST:     CGTTTTCCCAAATTCTTAATTGCCTGGTATCTTCTGGGGCTGATGCCCAG                         TTGTGTGTGTGGAGCATTGATGGATGGGAAAAAAGGAAATCGAGATTTA--
genomic: CGTTTTCCCAAATTCTTAATTGCCTGGTATCTTCTGGGGCTGATGCCCAGgtcagtagct ... tgggttgcagTTGTGTGTGTGGAGCATTGATGGATGGGAAAAAAGGAAATCGAGGTTTATA
EST: gi|71879582|gb|DT028637.1|DT028637
EST:     CGTTTTCCCAAATTCTTAATTGCCTGGTATCTTCTGGGGCTGATGCCCAG                         TTGTGTGTGTGGAGCATTGATGGATGGGAAAAAAGGAAATCGAGATTTA--
genomic: CGTTTTCCCAAATTCTTAATTGCCTGGTATCTTCTGGGGCTGATGCCCAGgtcagtagct ... tgggttgcagTTGTGTGTGTGGAGCATTGATGGATGGGAAAAAAGGAAATCGAGGTTTATA
EST: gi|71879455|gb|DT028510.1|DT028510
EST:     CGTTTTCCCAAATTCTTAATTGCCTGGTATCTTCTGGGGCTGATGCCCAG                         TTGTGTGTGTGGAGCATTGATGGATGGGAAAAAAGGAAATCGAGATTTA--
genomic: CGTTTTCCCAAATTCTTAATTGCCTGGTATCTTCTGGGGCTGATGCCCAGgtcagtagct ... tgggttgcagTTGTGTGTGTGGAGCATTGATGGATGGGAAAAAAGGAAATCGAGGTTTATA
EST: gi|71879339|gb|DT028394.1|DT028394
EST:     CGTTTTCCCAAATTCTTAATTGCCTGGTATCTTCTGGGGCTGATGCCCAG                         TTGTGTGTGTGGAGCATTGATGGATG
genomic: CGTTTTCCCAAATTCTTAATTGCCTGGTATCTTCTGGGGCTGATGCCCAGgtcagtagct ... tgggttgcagTTGTGTGTGTGGAGCATTGATGGATG
EST: gi|71878846|gb|DT027901.1|DT027901
EST:     CGTTTTCCCAAATTCTTAATTGCCTGGTATCTTCTGGGGCTGATGCCCAG                         TTGTGTGTGTGGAGCATTGATGGATGGGAAAAAAGGAAATCGAGATTTA--
genomic: CGTTTTCCCAAATTCTTAATTGCCTGGTATCTTCTGGGGCTGATGCCCAGgtcagtagct ... tgggttgcagTTGTGTGTGTGGAGCATTGATGGATGGGAAAAAAGGAAATCGAGGTTTATA
EST: gi|71880267|gb|DT029322.1|DT029322
EST:     CGTTTTCCCAAATTCTTAATTGCCTGGTATCTTCTGGGGCTGATGCCCAG                         TTGTGTGTGTGGAGCATTGATGGATGGGAAAAAAGGAAATCGAGATTTA--
genomic: CGTTTTCCCAAATTCTTAATTGCCTGGTATCTTCTGGGGCTGATGCCCAGgtcagtagct ... tgggttgcagTTGTGTGTGTGGAGCATTGATGGATGGGAAAAAAGGAAATCGAGGTTTATA
EST: gi|71880607|gb|DT029662.1|DT029662
EST:     CGTTTTCCCAAATTCTTAATTGCCTGGTATCTTCTGGGGCTGATGCCCAG                         TTGTGTGTGTGGAGCATTGATGGATGGGAAAAAAGGAAATCGAGATTTA--
genomic: CGTTTTCCCAAATTCTTAATTGCCTGGTATCTTCTGGGGCTGATGCCCAGgtcagtagct ... tgggttgcagTTGTGTGTGTGGAGCATTGATGGATGGGAAAAAAGGAAATCGAGGTTTATA
EST: gi|71878134|gb|DT027189.1|DT027189
EST:     CGTTTTCCCAAATTCTTAATTGCCTGGTATCTTCTGGGGCTGATGCCCAG                         TTGTGTGTGTGGAGCATTGATGGATGGGAAAAAAGGAAATCGAGATTTA--
genomic: CGTTTTCCCAAATTCTTAATTGCCTGGTATCTTCTGGGGCTGATGCCCAGgtcagtagct ... tgggttgcagTTGTGTGTGTGGAGCATTGATGGATGGGAAAAAAGGAAATCGAGGTTTATA
EST: gi|294965133|gb|GW836964.1|GW836964
EST:     CGTTTTCCCAAATTCTTAATTGCCTGGTATCTTCTGGGGCTGATGCCCAG                         TTGTGTGTGTGGAGCATTGATGGATGGGAAAAAAGGAAATCGAGGTTTATA
genomic: CGTTTTCCCAAATTCTTAATTGCCTGGTATCTTCTGGGGCTGATGCCCAGgtcagtagct ... tgggttgcagTTGTGTGTGTGGAGCATTGATGGATGGGAAAAAAGGAAATCGAGGTTTATA
EST: gi|71879171|gb|DT028226.1|DT028226
EST:     CGTTTTCCCAAATTCTTAATTGCCTGGTATCTTCTGGGGCTGATGCCCAG                         TTGTGTGTGTGGAGCATTGATGGATGGGAAAAAAGGAAATCGAGATTTA--
genomic: CGTTTTCCCAAATTCTTAATTGCCTGGTATCTTCTGGGGCTGATGCCCAGgtcagtagct ... tgggttgcagTTGTGTGTGTGGAGCATTGATGGATGGGAAAAAAGGAAATCGAGGTTTATA
EST: gi|71881027|gb|DT030082.1|DT030082
EST:     CGTTTTCCCAAATTCTTAATTGCCTGGTATCTTCTGGGGCTGATGCCCAG                         TTGTGTGTGTGGAGCATTGATGGATGGGAAAAAAGGAAATCGAGATTTA
genomic: CGTTTTCCCAAATTCTTAATTGCCTGGTATCTTCTGGGGCTGATGCCCAGgtcagtagct ... tgggttgcagTTGTGTGTGTGGAGCATTGATGGATGGGAAAAAAGGAAATCGAGGTTTA
EST: gi|71881083|gb|DT030138.1|DT030138
EST:     CGTTTTCCCAAATTCTTAATTGCCTGGTATCTTCTGGGGCTGATGCCCAG                         TTGTGTGTGTGGAGCATTGATGGATGGGAAAAAAGGAAATCGAGATTTA--
genomic: CGTTTTCCCAAATTCTTAATTGCCTGGTATCTTCTGGGGCTGATGCCCAGgtcagtagct ... tgggttgcagTTGTGTGTGTGGAGCATTGATGGATGGGAAAAAAGGAAATCGAGGTTTATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggaattaatttttagctgtatgatacttattttgatttgatgaattgggttgcagTTGTGTGTGTGGAGCATTGATGGATGGGAAAAAAGGAAATCGAGGTTTATACAAGCTCCAGCAGGTCGCTCGTCCCCGTTGGTTGGAGACACTAAAGTCC
                      atacttattttgattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
acactggcatttttattatttgcctaagcaattagtcaatttccaggaattaatttttagctgtatgatacttattttgatttgatgaattgggttgcagTTGTGTGTGTGGAGCATTGATGGATGGGAAAAAAGGAAATCGAGGTTTATACAAGCTCCAGCAGGTCGCTCGTCCCCGTTGGTTGGAGACACTAAAGTCC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - -ggcattt
- - - - - - - - - - tgcctaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctgtatg