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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgcacttgtttcttctgatttctgatttctgattttgattttagtattttagtataattaattatgagcccagaaaaacctttatgtgatatttgattttagttgtttttcttatttttttgttaatttttttgttgggttctctctctctctctctctctctctctctctctgtcttttggcagGTATAAGGTGTCTTTCCCTAACCTGTATGCGTTGGAATCTGAAAACAAGGATGCCAAGCTCTTCAACTGTGTCCAG

Basic information

species Vitis vinifera
transcript Vv04s0159g00040.t01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv04s0159g00040.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT1G65820.1 (Arabidopsis thaliana), 3'ss of exon 1
gtgtgcacttgtttcttctgatttctgatttctgattttgattttagtattttagtataattaattatgagcccagaaaaacctttatgtgatatttgattttagttgtttttcttatttttttg-ttaatttttttgttgggttctctctctctctctctc-tctctc-tctctctctg-tcttttggcagGTATAAGGTGTCTTTCCCTAACCTGTATGCGTTGGAATCTGAAAACAAGGATGCCAAGCTCTTCAACTGTGTCCAG
                                                                                            || ||||||    |        || | || | | |||  | | ||||| | |  |||     | |   |  |||| | |   ||| || ||||   ||||||| || ||  | |  || |  || |||||  | ||||| |||||||| ||||| ||||||||||||||||| |||
--------------------------------------------------------------------------------------------taattgattagtatgagcgagattgtcttatcggttagatctgttgtttgttcatcttcaattttgaatgatctcacatgagtctatgatcttgatgcagGTACAACGTCCCGTATCCAACTCTATATGCAATAGAATCAGAAAACAAAGATGCTAAGCTCTTCAACTGTGTTCAG

upper sequence: Vv04s0159g00040.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT1G65820.2 (Arabidopsis thaliana), 3'ss of exon 2
gtgtgcacttgtttcttctgatttctgatttctgattttgattttagtattttagtataattaattatgagcccagaaaaacctttatgtgatatttgattttagtt-gtttttcttatttttttgttaatttttttgttgggttctctctctctctctctctctctctctctctctgtcttttggcagGTATAAGGTGTCTTTCCCTAACCTGTATGCGTTGGAATCTGAAAACAAGGATGCCAAGCTCTTCAACTGTGTCCAG
                                                                           |   | | | ||     |  ||  | | ||   | || ||||||   || | |   || ||||||   |  ||  | |       |||| |            ||||   ||||||| || ||  | |  || |  || |||||  | ||||| |||||||| ||||| ||||||||||||||||| |||
---------------------------------------------------------------------------gttcatcttctactaattgattagtatgagcgagattgtcttatcggttagatctgttgtttgttca-tcttcaattttgaatgatctcacatgagtctatgatcttgatgcagGTACAACGTCCCGTATCCAACTCTATATGCAATAGAATCAGAAAACAAAGATGCTAAGCTCTTCAACTGTGTTCAG
















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|351030284|gb|FQ432222.1|FQ432222
EST:     TGCTTTCTCAATTTCTTCATGGCTATCAGCGTAGGCAAAGCCCGGAAGAA                         GTATAAGGTGTCTTTCCCTAACCTGTATGCGTTGGAATCTGAAAACAAGGA
genomic: TGCTTTCTCAATTTCTTCATGGCTATCAGCGTAGGCAAAGCCCGGAAGAAgtgtgcactt ... cttttggcagGTATAAGGTGTCTTTCCCTAACCTGTATGCGTTGGAATCTGAAAACAAGGA
EST: gi|351024214|gb|FQ423637.1|FQ423637
EST:     TGCTTTCTCAATTTCTTCATGGCTATCAGCGTAGGCAAAGCCCGGAAGAA                         GTATAAGGTGTCTTTCCCTAACCTGTATGCGTTGGAATCTGAAAACAAGGA
genomic: TGCTTTCTCAATTTCTTCATGGCTATCAGCGTAGGCAAAGCCCGGAAGAAgtgtgcactt ... cttttggcagGTATAAGGTGTCTTTCCCTAACCTGTATGCGTTGGAATCTGAAAACAAGGA
EST: gi|352799089|gb|FQ477951.1|FQ477951
EST:     TGCTTTCTCAATTTCTTCATGGCTATCAGCGTAGGCAAAGCCCGGAAGAA                         GTATAAGGTGTCTTTCCCTAACCTGTATGCGTTGGAATCTGAAAACAAGGA
genomic: TGCTTTCTCAATTTCTTCATGGCTATCAGCGTAGGCAAAGCCCGGAAGAAgtgtgcactt ... cttttggcagGTATAAGGTGTCTTTCCCTAACCTGTATGCGTTGGAATCTGAAAACAAGGA
EST: gi|351031126|gb|FQ444953.1|FQ444953
EST:     TGCTTTCTCAATTTCTTCATGGCTATCAGCGTAGGCAAAGCCCGGAAGAA                         GTATAAGGTGTCTTTCCCTAACCTGTATGCGTTGGAATCTGAAAACAAGGA
genomic: TGCTTTCTCAATTTCTTCATGGCTATCAGCGTAGGCAAAGCCCGGAAGAAgtgtgcactt ... cttttggcagGTATAAGGTGTCTTTCCCTAACCTGTATGCGTTGGAATCTGAAAACAAGGA
EST: gi|349826884|gb|FQ418975.1|FQ418975
EST:     TGCTTTCTCAATTTCTTCATGGCTATCAGCGTAGGCAAAGCCCGGAAGAA                         GTATAAGGTGTCTTTCCCTAACCTGTATGCGTTGGAATCTGAAAACAAGGA
genomic: TGCTTTCTCAATTTCTTCATGGCTATCAGCGTAGGCAAAGCCCGGAAGAAgtgtgcactt ... cttttggcagGTATAAGGTGTCTTTCCCTAACCTGTATGCGTTGGAATCTGAAAACAAGGA
EST: gi|71888045|gb|DT037100.1|DT037100
EST:     TGCTTTCTCAATTTCTTCATGGCTATCAGCGTAGGCAAAGCCCGGAAGAA                         GTATAAGGTGTCTTTCCCTAACCTGTATGCGTTGGAATCTGAAAACAAGGA
genomic: TGCTTTCTCAATTTCTTCATGGCTATCAGCGTAGGCAAAGCCCGGAAGAAgtgtgcactt ... cttttggcagGTATAAGGTGTCTTTCCCTAACCTGTATGCGTTGGAATCTGAAAACAAGGA
EST: gi|110374485|gb|EC939270.1|EC939270
EST:     TGCTTTCTCAATTTCTTCATGGCTATCAGCGTAGGCAAAGCCCGGAAGAA                         GTATAAGGTGTCTTTCCCTAACCTGTATGCGTTGGAATCTGAAAACAAGGA
genomic: TGCTTTCTCAATTTCTTCATGGCTATCAGCGTAGGCAAAGCCCGGAAGAAgtgtgcactt ... cttttggcagGTATAAGGTGTCTTTCCCTAACCTGTATGCGTTGGAATCTGAAAACAAGGA
EST: gi|351035258|gb|FQ458615.1|FQ458615
EST:     TGCTTTCTCAATTTCTTCATGGCTATCAGCGTAGGCAAAGCCCGGAAGAA                         GTATAAGGTGTCTTTCCCTAACCTGTATGCGTTGGAATCTGAAAACAAGGA
genomic: TGCTTTCTCAATTTCTTCATGGCTATCAGCGTAGGCAAAGCCCGGAAGAAgtgtgcactt ... cttttggcagGTATAAGGTGTCTTTCCCTAACCTGTATGCGTTGGAATCTGAAAACAAGGA
EST: gi|71883563|gb|DT032618.1|DT032618
EST:     TGCTTTCTCAATTTCTTCATGGCTATCAGCGTAGGCAAAGCCCGGAAGAA                         GTATAAGGTGTCTTTCCCTAACCTGTATGCGTTGGAATCTGAAAACAAGGA
genomic: TGCTTTCTCAATTTCTTCATGGCTATCAGCGTAGGCAAAGCCCGGAAGAAgtgtgcactt ... cttttggcagGTATAAGGTGTCTTTCCCTAACCTGTATGCGTTGGAATCTGAAAACAAGGA
EST: gi|110696635|gb|EE072923.1|EE072923
EST:     TGCTTTCTCAATTTCTTCATGGCTATCAGCGTAGGCAAAGCCCGGAAGAA                         GTATAAGGTGTCTTTCCCTAACCTGTATGCGTTGGAATCTGAAAACAAGGA
genomic: TGCTTTCTCAATTTCTTCATGGCTATCAGCGTAGGCAAAGCCCGGAAGAAgtgtgcactt ... cttttggcagGTATAAGGTGTCTTTCCCTAACCTGTATGCGTTGGAATCTGAAAACAAGGA
EST: gi|351043732|gb|FQ431085.1|FQ431085
EST:     TGCTTTCTCAATTTCTTCATGGCTATCAGCGTAGGCAAAGCCCGGAAGAA                         GTATAAGGTGTCTTTCCCTAACCTGTATGCGTTGGAATCTGAAAACAAGGA
genomic: TGCTTTCTCAATTTCTTCATGGCTATCAGCGTAGGCAAAGCCCGGAAGAAgtgtgcactt ... cttttggcagGTATAAGGTGTCTTTCCCTAACCTGTATGCGTTGGAATCTGAAAACAAGGA
EST: gi|71887375|gb|DT036430.1|DT036430
EST:     TGCTTTCTCAATTTCTTCATGGCTATCAGCGTAGGCAAAGCCCGGAAGAA                         GTATAAGGTGTCTTTCCCTAACCTGTATGCGTTGGAATCTGAAAACAAGGA
genomic: TGCTTTCTCAATTTCTTCATGGCTATCAGCGTAGGCAAAGCCCGGAAGAAgtgtgcactt ... cttttggcagGTATAAGGTGTCTTTCCCTAACCTGTATGCGTTGGAATCTGAAAACAAGGA
EST: gi|351015575|gb|FQ426817.1|FQ426817
EST:     TGCTTTCTCAATTTCTTCATGGCTATCAGCGTAGGCAAAGCCCGGAAGAA                         GTATAAGGTGTCTTTCCCTAACCTGTATGCGTTGGAATCTGAGAACAAGGA
genomic: TGCTTTCTCAATTTCTTCATGGCTATCAGCGTAGGCAAAGCCCGGAAGAAgtgtgcactt ... cttttggcagGTATAAGGTGTCTTTCCCTAACCTGTATGCGTTGGAATCTGAAAACAAGGA
EST: gi|110377305|gb|EC942369.1|EC942369
EST:     TGCTTTCTCAATTTCTTCATGGCTATCAGCGTAGGCAAAGCCCGGAAGAA                         GTATAAGGTGTCTTTCCCTAACCTGTATGCGTTGGAATCTGAAAACAAGGA
genomic: TGCTTTCTCAATTTCTTCATGGCTATCAGCGTAGGCAAAGCCCGGAAGAAgtgtgcactt ... cttttggcagGTATAAGGTGTCTTTCCCTAACCTGTATGCGTTGGAATCTGAAAACAAGGA
EST: gi|110380879|gb|EC946178.1|EC946178
EST:     TGCTTTCTCAATTTCTTCATGGCTATCAGCGTAGGCAAAGCCCGGAAGAA                         GTATAAGGTGTCTTTCCCTAACCTGTATGCGTTGGAATCTGAAAACAAGGA
genomic: TGCTTTCTCAATTTCTTCATGGCTATCAGCGTAGGCAAAGCCCGGAAGAAgtgtgcactt ... cttttggcagGTATAAGGTGTCTTTCCCTAACCTGTATGCGTTGGAATCTGAAAACAAGGA
EST: gi|71889806|gb|DT038861.1|DT038861
EST:     TGCTTTCTCAATTTCTTCATGGCTATCAGCGTAGGCAAAGCCCGGAAGAA                         GTATAAGGTGTCTTTCCCTAACCTGTATGCGTTGGAATCTGAAAACAAGGA
genomic: TGCTTTCTCAATTTCTTCATGGCTATCAGCGTAGGCAAAGCCCGGAAGAAgtgtgcactt ... cttttggcagGTATAAGGTGTCTTTCCCTAACCTGTATGCGTTGGAATCTGAAAACAAGGA
EST: gi|110371361|gb|EC935325.1|EC935325
EST:     TGCTTTCTCAATTTCTTCATGGCTATCAGCGTAGGCAAAGCCCGGAAGAA                         GTATAAGGTGTCTTTCCCTAACCTGTATGCGTTGGAATCTGAAAACAAGGA
genomic: TGCTTTCTCAATTTCTTCATGGCTATCAGCGTAGGCAAAGCCCGGAAGAAgtgtgcactt ... cttttggcagGTATAAGGTGTCTTTCCCTAACCTGTATGCGTTGGAATCTGAAAACAAGGA
EST: gi|71881338|gb|DT030393.1|DT030393
EST:     TGCTTTCTCAATTTCTTCATGGCTATCAGCGTAGGCAAAGCCCGGAAGAA                         GTATAAGGTGTCTTTCCCTAACCTGTATGCGTTGGAATCTGAAAACAAGGA
genomic: TGCTTTCTCAATTTCTTCATGGCTATCAGCGTAGGCAAAGCCCGGAAGAAgtgtgcactt ... cttttggcagGTATAAGGTGTCTTTCCCTAACCTGTATGCGTTGGAATCTGAAAACAAGGA
EST: gi|71888803|gb|DT037858.1|DT037858
EST:     TGCTTTCTCAATTTCTTCATGGCTATCAGCGTAGGCAAAGCCCGGAAGAA                         GTATAAGGTGTCTTTCCCTAACCTGTATGCGTTGGAATCTGAAAACAAGGA
genomic: TGCTTTCTCAATTTCTTCATGGCTATCAGCGTAGGCAAAGCCCGGAAGAAgtgtgcactt ... cttttggcagGTATAAGGTGTCTTTCCCTAACCTGTATGCGTTGGAATCTGAAAACAAGGA
EST: gi|71884977|gb|DT034032.1|DT034032
EST:     TGCTTTCTCAATTTCTTCATGGCTATCAGCGTAGGCAAAGCCCGGAAGAA                         GTATAAGGTGTCTTTCCCTAACCTGTATGCGTTGGAATCTGAAAACAAGGA
genomic: TGCTTTCTCAATTTCTTCATGGCTATCAGCGTAGGCAAAGCCCGGAAGAAgtgtgcactt ... cttttggcagGTATAAGGTGTCTTTCCCTAACCTGTATGCGTTGGAATCTGAAAACAAGGA
EST: gi|351033319|gb|FQ446551.1|FQ446551
EST:     TGCTTTCTCAATTTCTTCATGGCTATCAGCGTAGGCAAAGCCCGGAAGAA                         GTATAAGGTGTCTTTCCCTAACCTGTATGCGTTGGAATCTGAAAACAAGGA
genomic: TGCTTTCTCAATTTCTTCATGGCTATCAGCGTAGGCAAAGCCCGGAAGAAgtgtgcactt ... cttttggcagGTATAAGGTGTCTTTCCCTAACCTGTATGCGTTGGAATCTGAAAACAAGGA
EST: gi|351024173|gb|FQ423596.1|FQ423596
EST:     TGCTTTCTCAATTTCTTCATGGCTATCAGCGTAGGCAAAGCCCGGAAGAA                         GTATAAGGTGTCTTTCCCTAACCTGTATGCGTTGGAATCTGAAAACAAGGA
genomic: TGCTTTCTCAATTTCTTCATGGCTATCAGCGTAGGCAAAGCCCGGAAGAAgtgtgcactt ... cttttggcagGTATAAGGTGTCTTTCCCTAACCTGTATGCGTTGGAATCTGAAAACAAGGA
EST: gi|351018836|gb|FQ425738.1|FQ425738
EST:     TGCTTTCTCAATTTCTTCATGGCTATCAGCGTAGGCAAAGTCCGGAAGAA                         GTATAAGGTGTCTTTCCCTAACCTGTATGCGTTGGAATCTGAAAACAAGGA
genomic: TGCTTTCTCAATTTCTTCATGGCTATCAGCGTAGGCAAAGCCCGGAAGAAgtgtgcactt ... cttttggcagGTATAAGGTGTCTTTCCCTAACCTGTATGCGTTGGAATCTGAAAACAAGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgttgggttctctctctctctctctctctctctctctctctgtcttttggcagGTATAAGGTGTCTTTCCCTAACCTGTATGCGTTGGAATCTGAAAACAAGGATGCCAAGCTCTTCAACTGTGTCCAG
         ttctctctctctctct  CT-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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgtgcacttgtttcttctgatttctgatttctgattttgattttagtattttagtataattaattatgagcccagaaaaacctttatgtgatatttgattttagttgtttttcttatttttttgttaatttttttgttgggttctctctctctctctctctctctctctctctctgtcttttggcagGTATAAGGTGTCTTTCCCTAACCTGTATGCGTTGGAATCTGAAAACAAGGATGCCAAGCTCTTCAACTGTGTCCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT