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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttgttcttgttccttggttgaaacgaaattggtaaagactttgtatagagtttgatccatattcatttgttttgtttgggatgtagGTTTTGACATCAATAGTTTGGGGTGTCTTCTTCAAGGAAGGGAAAGAGCAGGAGGAAGCTATGCTTGAAGCCATGGAGCATCTCCAGTTCTTGGAAGACG

Basic information

species Vitis vinifera
transcript Vv00s0153g00050.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|110393391|gb|EC958598.1|EC958598
EST:     CTTACGAGAGAGCCATGGCTCGCTTCTGGGCCAAATTTGGTGACGATAAG                         GTTTTGACATCAATAGTTTGGGGTGTCTTCTTCAAGGAAGGGAAAGAGCAG
genomic: CTTACGAGAGAGCCATGGCTCGCTTCTGGGCCAAATTTGGTGACGATAAGgttgttcttg ... tgggatgtagGTTTTGACATCAATAGTTTGGGGTGTCTTCTTCAAGGAAGGGAAAGAGCAG
EST: gi|161718737|gb|FC066344.1|FC066344
EST:     CTTACGAGAGTGCCATGGCTCGCTTCTGGGCCAAATTTGGTGACGATAAG                         GTTTTGACATCAATAGTTTGGGGTGTCTTCTTCAAGGAAGGGAAAGAGCAG
genomic: CTTACGAGAGAGCCATGGCTCGCTTCTGGGCCAAATTTGGTGACGATAAGgttgttcttg ... tgggatgtagGTTTTGACATCAATAGTTTGGGGTGTCTTCTTCAAGGAAGGGAAAGAGCAG
EST: gi|161707000|gb|FC055108.1|FC055108
EST:     CTTACGAGAGAGCCATGGCTCGCTTCTGGGCCAAATTTGGTGACGATAAG                         GTTTTGACATCAATAGTTTGGGGTGTCTTCTTCAAGGAAGGGAAAGAGCAG
genomic: CTTACGAGAGAGCCATGGCTCGCTTCTGGGCCAAATTTGGTGACGATAAGgttgttcttg ... tgggatgtagGTTTTGACATCAATAGTTTGGGGTGTCTTCTTCAAGGAAGGGAAAGAGCAG
EST: gi|30131665|gb|CB917004.1|CB917004
EST:     CTTACGAGAGAGCCATGGCTCGCTTCTGGGCCAAATTTGGTGACGATAAG                         GTTTTGACAACAATAGTTTGGGGTGTCTTCTTCAAGGAAGGGAAAGAGCAG
genomic: CTTACGAGAGAGCCATGGCTCGCTTCTGGGCCAAATTTGGTGACGATAAGgttgttcttg ... tgggatgtagGTTTTGACATCAATAGTTTGGGGTGTCTTCTTCAAGGAAGGGAAAGAGCAG
EST: gi|349825020|gb|FQ415567.1|FQ415567
EST:     CTTACGAGAGAGCCATGGCTCGCTTCTGGGCCAAATTTGGTGACGATAAG                         GTTTTGACATCAATAGTTTGGGGTGTCTTCTTCAAGGAAGGGAAAGAGCAG
genomic: CTTACGAGAGAGCCATGGCTCGCTTCTGGGCCAAATTTGGTGACGATAAGgttgttcttg ... tgggatgtagGTTTTGACATCAATAGTTTGGGGTGTCTTCTTCAAGGAAGGGAAAGAGCAG
EST: gi|22010847|gb|BQ795881.1|BQ795881
EST:     CTTACGAGAGAGCCATGGCTCGCTTCTGGGCCAAATTTGGTGACGATAAG                         GTTTTGACATCAATAGTTTGGGGTGTCTTCTTCAAGGAAGGGAAAGAGCAG
genomic: CTTACGAGAGAGCCATGGCTCGCTTCTGGGCCAAATTTGGTGACGATAAGgttgttcttg ... tgggatgtagGTTTTGACATCAATAGTTTGGGGTGTCTTCTTCAAGGAAGGGAAAGAGCAG
EST: gi|30131160|gb|CB916499.1|CB916499
EST:     CTTACGAGAGAGCCATGGCTCGCTTCTGGGCCAAATTTGGTGACGATAAG                         GTTTTGACAACAATAGTTTGGGGTGTCTTCTTCAAGGAAGGGAAAGAGCAG
genomic: CTTACGAGAGAGCCATGGCTCGCTTCTGGGCCAAATTTGGTGACGATAAGgttgttcttg ... tgggatgtagGTTTTGACATCAATAGTTTGGGGTGTCTTCTTCAAGGAAGGGAAAGAGCAG
EST: gi|30136757|gb|CB922095.1|CB922095
EST:     CTTACGAGAGAGCCATGGCTCGCTTCTGGGCCAAATTTGGTGACGATAAG                         GTTTTGACAACAATAGTTTGGGGTGTCTTCTTCAAGGAAGGGAAAGAGCAG
genomic: CTTACGAGAGAGCCATGGCTCGCTTCTGGGCCAAATTTGGTGACGATAAGgttgttcttg ... tgggatgtagGTTTTGACATCAATAGTTTGGGGTGTCTTCTTCAAGGAAGGGAAAGAGCAG
EST: gi|161712807|gb|FC062330.1|FC062330
EST:     CTTACGAGAGAGCCATGGCTCGCTTCTGGGCCAAATTTGGTGACAATAAG                         GTTTTGACATCAATAGTTTGGGGTGTCTTCTTCAAGGAACGGAAAGAGCAG
genomic: CTTACGAGAGAGCCATGGCTCGCTTCTGGGCCAAATTTGGTGACGATAAGgttgttcttg ... tgggatgtagGTTTTGACATCAATAGTTTGGGGTGTCTTCTTCAAGGAAGGGAAAGAGCAG
EST: gi|110372035|gb|EC936177.1|EC936177
EST:     CTTACGAGAGAGCCATGGCTCGCTTCTGGGCCAAATTTGGTGACGATAAG                         GTTTTGACATCAATAGTTTGGGGTGTCTTCTTCAAGGAAGGGAAAGAGCAG
genomic: CTTACGAGAGAGCCATGGCTCGCTTCTGGGCCAAATTTGGTGACGATAAGgttgttcttg ... tgggatgtagGTTTTGACATCAATAGTTTGGGGTGTCTTCTTCAAGGAAGGGAAAGAGCAG
EST: gi|71868722|gb|DT017777.1|DT017777
EST:     CTTACGAGAGAGCCATGGCTCGCTTCTGGGCCAAATTTGGTGACGATAAG                         GTTTTGACATCAATAGTTTGGGGTGTCTTCTTCAAGGAAGGGAAAGAGCAG
genomic: CTTACGAGAGAGCCATGGCTCGCTTCTGGGCCAAATTTGGTGACGATAAGgttgttcttg ... tgggatgtagGTTTTGACATCAATAGTTTGGGGTGTCTTCTTCAAGGAAGGGAAAGAGCAG
EST: gi|110379860|gb|EC945082.1|EC945082
EST:     CTTACGAGAGAGCCATGGCTCGCTTCTGGGCCAAATTTGGTGACGATAAG                         GTTTTGACATCAATAGTTTGGGGTGTTTTCTTCAAGGAAGGGAAAGAGCAG
genomic: CTTACGAGAGAGCCATGGCTCGCTTCTGGGCCAAATTTGGTGACGATAAGgttgttcttg ... tgggatgtagGTTTTGACATCAATAGTTTGGGGTGTCTTCTTCAAGGAAGGGAAAGAGCAG
EST: gi|110700602|gb|EE077399.1|EE077399
EST:     CTTACGAGAGAGCCATGGCTCGCTTCTGGGCCAAATTTGGTGACGATAAG                         GTTTTGACATCAATAGTTTGGGGTGTCTTCTTCAAGGAAGGGAAAGAGCAG
genomic: CTTACGAGAGAGCCATGGCTCGCTTCTGGGCCAAATTTGGTGACGATAAGgttgttcttg ... tgggatgtagGTTTTGACATCAATAGTTTGGGGTGTCTTCTTCAAGGAAGGGAAAGAGCAG
EST: gi|27584928|gb|CB007623.1|CB007623
EST:     CTTACGAGAGAGCCATGGCTCGCTTCTGGGCCAAATTTGGTGACGATAAG                         GTTTTGACAACAATAGTTTGGGGTGTCTTCTTCAAGGAAGGGAAAGAGCAG
genomic: CTTACGAGAGAGCCATGGCTCGCTTCTGGGCCAAATTTGGTGACGATAAGgttgttcttg ... tgggatgtagGTTTTGACATCAATAGTTTGGGGTGTCTTCTTCAAGGAAGGGAAAGAGCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtaaagactttgtatagagtttgatccatattcatttgttttgtttgggatgtagGTTTTGACATCAATAGTTTGGGGTGTCTTCTTCAAGGAAGGGAAAGAGCAGGAGGAAGCTATGCTTGAAGCCATGGAGCATCTCCAGTTCTTGGAAGACG
                  gtttgat  putative branch site (score: 5)
 ttttgttt  putative PPT
 atattcatttgtttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttgttcttgttccttggttgaaacgaaattggtaaagactttgtatagagtttgatccatattcatttgttttgtttgggatgtagGTTTTGACATCAATAGTTTGGGGTGTCTTCTTCAAGGAAGGGAAAGAGCAGGAGGAAGCTATGCTTGAAGCCATGGAGCATCTCCAGTTCTTGGAAGACG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA