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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...attgtggtgatttgaactttatttagctatcttttatcctgattgaccacatatagtgtactttctcatgatttcatttgttttctctattgacaaccagGTTCCTTTGTGGTTCGTATAAAGGCCTGATGAACATTCAGCAGAAAGTCAGTCTGAAATTGGGGTTTCAAGCCATCTGTTATAAAGTGGAGATTGATTTG

Basic information

species Vitis vinifera
transcript Vv14s0030g00700.t01
intron # 3
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|30304539|gb|CB981333.1|CB981333
EST:     CTTGGGGATCCCATGTGCAGTTTCTGCTGATATATCCAACCTTCCTGCAT                         GTTCCTTTGTGGTTCGTATAAAGGCCTGATGAACATTCAGCAGAAAGTCAG
genomic: CTTGGGAATCCCATGTGCAGTTTCTGCTGATATATCCAACCTTCCTGCATgtgagtaact ... tgacaaccagGTTCCTTTGTGGTTCGTATAAAGGCCTGATGAACATTCAGCAGAAAGTCAG
EST: gi|110390006|gb|EC954889.1|EC954889
EST:     CTTGGGAATCCCATGTGCAGTTTCTGCTGACATATCCAACCTTCCTGCAT                         GTTCCTTTGTGGTTCGTATAAAGGCCTGATGAACATTCAGCAGAAAGTCAG
genomic: CTTGGGAATCCCATGTGCAGTTTCTGCTGATATATCCAACCTTCCTGCATgtgagtaact ... tgacaaccagGTTCCTTTGTGGTTCGTATAAAGGCCTGATGAACATTCAGCAGAAAGTCAG
EST: gi|26262203|gb|CA813266.1|CA813266
EST:     CTTGGGAATCCCATGTGCAGTTTCTGCTGATATATACAACCTTCCTGCAT                         GTTCCTTTGTGGTTCGTATAAAGGCCTGATGAACATTCAGCAGAAAGTCAG
genomic: CTTGGGAATCCCATGTGCAGTTTCTGCTGATATATCCAACCTTCCTGCATgtgagtaact ... tgacaaccagGTTCCTTTGTGGTTCGTATAAAGGCCTGATGAACATTCAGCAGAAAGTCAG
EST: gi|46918551|gb|CN547880.1|CN547880
EST:     CTTGGGAATCCCATGTGCAGTTTCTGCTGATATATCCAACCTTCCTGCAT                         GTTCCTTTGTGGTTCGTATAAAGGCCTGATGAACATTCAGCAGAAAGTCAG
genomic: CTTGGGAATCCCATGTGCAGTTTCTGCTGATATATCCAACCTTCCTGCATgtgagtaact ... tgacaaccagGTTCCTTTGTGGTTCGTATAAAGGCCTGATGAACATTCAGCAGAAAGTCAG
EST: gi|71881688|gb|DT030743.1|DT030743
EST:     CTTGGGAATCCCATGTGCAGTTTCTGCTGACATATCCAACCTTCCTGCAT                         GTTCCTTTGTGGTTCGTATAAAGGCCTGATGAACATTCAGCAGAAAGTCAG
genomic: CTTGGGAATCCCATGTGCAGTTTCTGCTGATATATCCAACCTTCCTGCATgtgagtaact ... tgacaaccagGTTCCTTTGTGGTTCGTATAAAGGCCTGATGAACATTCAGCAGAAAGTCAG
EST: gi|26263640|gb|CA814703.1|CA814703
EST:     CTTGGGAATCCCATGTGCAGTTTCTGCTGATATATCCAACCTTCCTGCAT                         GTTCCTTTGTGGTTCGTATAAAGGCCTGATGAACATTCAGCAGAAAGTCAG
genomic: CTTGGGAATCCCATGTGCAGTTTCTGCTGATATATCCAACCTTCCTGCATgtgagtaact ... tgacaaccagGTTCCTTTGTGGTTCGTATAAAGGCCTGATGAACATTCAGCAGAAAGTCAG
EST: gi|30136525|gb|CB921863.1|CB921863
EST:     CTTGGGAATCCCATGTGCAGTTTCTGCTGATATATCCAACCTTCCTGCAT                         GTTCCTTTGTGGTTCGTATAAAGGCCTGATGAACATTCAGCAGAAAGTCAG
genomic: CTTGGGAATCCCATGTGCAGTTTCTGCTGATATATCCAACCTTCCTGCATgtgagtaact ... tgacaaccagGTTCCTTTGTGGTTCGTATAAAGGCCTGATGAACATTCAGCAGAAAGTCAG
EST: gi|30132412|gb|CB917751.1|CB917751
EST:     CTTGGGAATCCCATGTGCAGTTTCTGCTGATATATCCAACCTTCCTGCAT                         GTTCCTTTGTGGTTCGTATAAAGGCCTGATGAACATTCAGCAGAAAGTCAG
genomic: CTTGGGAATCCCATGTGCAGTTTCTGCTGATATATCCAACCTTCCTGCATgtgagtaact ... tgacaaccagGTTCCTTTGTGGTTCGTATAAAGGCCTGATGAACATTCAGCAGAAAGTCAG
EST: gi|28966801|gb|CB345834.1|CB345834
EST:     CTTGGGAATCCCATGTGCAGTTTCTGCTGACATATCCAACCTTCCTGCAT                         GTTCCTTTGTGGTTCGTATAAAGGCCTGATGAACATTCAGCAGAAAGTCAG
genomic: CTTGGGAATCCCATGTGCAGTTTCTGCTGATATATCCAACCTTCCTGCATgtgagtaact ... tgacaaccagGTTCCTTTGTGGTTCGTATAAAGGCCTGATGAACATTCAGCAGAAAGTCAG
EST: gi|26262474|gb|CA813537.1|CA813537
EST:     CTTGGGAATCCCATGTGCAGTTTCTGCTGATATATCCAACCTTCCTGCAT                         GTNCCTTTGTGGTTCGTATAAAGGCCTGATGAACATTCAGCAGAAAGTCAG
genomic: CTTGGGAATCCCATGTGCAGTTTCTGCTGATATATCCAACCTTCCTGCATgtgagtaact ... tgacaaccagGTTCCTTTGTGGTTCGTATAAAGGCCTGATGAACATTCAGCAGAAAGTCAG
EST: gi|110361203|gb|EC924659.1|EC924659
EST:     CTTGGGAATCCCATGTGCAGTTTCTGCTGACATATCCAACCTTCCTGCAT                         GTTCCTTTGTGGTTCGTATAAAGGCCTGATGAACATTCAGCAGAAAGTCAG
genomic: CTTGGGAATCCCATGTGCAGTTTCTGCTGATATATCCAACCTTCCTGCATgtgagtaact ... tgacaaccagGTTCCTTTGTGGTTCGTATAAAGGCCTGATGAACATTCAGCAGAAAGTCAG
EST: gi|30135317|gb|CB920655.1|CB920655
EST:     CTTGGGAATCCCATGTGCAGTTTCTGCTGATATATCCAACCTTCCTGCAT                         GTTCCTTTGTGGTTCGTATAAAGGCCTGATGAACATTCAGCAGAAAGTCAG
genomic: CTTGGGAATCCCATGTGCAGTTTCTGCTGATATATCCAACCTTCCTGCATgtgagtaact ... tgacaaccagGTTCCTTTGTGGTTCGTATAAAGGCCTGATGAACATTCAGCAGAAAGTCAG
EST: gi|110380802|gb|EC946095.1|EC946095
EST:     CTTGGGAATCCCATGTGCAGTTTCTGCTGATATATCCAACCTTCCTGCAT                         GTTCCTTTGTGGTTCGTATAAAGGCCTGATGAACATTCAGCAGAAAGTCAG
genomic: CTTGGGAATCCCATGTGCAGTTTCTGCTGATATATCCAACCTTCCTGCATgtgagtaact ... tgacaaccagGTTCCTTTGTGGTTCGTATAAAGGCCTGATGAACATTCAGCAGAAAGTCAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

accacatatagtgtactttctcatgatttcatttgttttctctattgacaaccagGTTCCTTTGTGGTTCGTATAAAGGCCTGATGAACATTCAGCAGAAAGTCAGTCTGAAATTGGGGTTTCAAGCCATCTGTTATAAAGTGGAGATTGATTTG
                                          tattgac  putative branch site (score: 2)
                               tttgttttctctatt  CT-rich tract
                         atttcatttgtttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
attgtggtgatttgaactttatttagctatcttttatcctgattgaccacatatagtgtactttctcatgatttcatttgttttctctattgacaaccagGTTCCTTTGTGGTTCGTATAAAGGCCTGATGAACATTCAGCAGAAAGTCAGTCTGAAATTGGGGTTTCAAGCCATCTGTTATAAAGTGGAGATTGATTTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAT
- tgtggtg
- - - - - - - - - - - - - - - - - - -cctgatt
- - - - - - - - - - - - - - - - - - - - - - - ccacata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctcatga