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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtagtcactcattgggatttccgttaatgcaagtgtactcaacaattagtttagaaatatatgatctctctaattgcttggtgtaatttaaaatttgcagAGGATTCTTTGACTCGCGAATCAGGAAGTAAGGTCCAGCATGCCAATATCCAAGCGTCAAAG

Basic information

species Vitis vinifera
transcript Vv17s0000g08170.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|352773628|gb|FQ472410.1|FQ472410
EST:     TTAGGGTTTTCCACAATCTCCAGTCATGCAAGCGCCAGTGCTGGTTCTCA                         AGGATTCTTTGACTCGCGAATCAGGAAGTAAGGTCCAGCATGCCAATATCC
genomic: TTAGGGTTTTCCACAATCTCCAGTCATGCAAGCGCCAGTGCTGGTTCTCAgtgagtcccc ... aaatttgcagAGGATTCTTTGACTCGCGAATCAGGAAGTAAGGTCCAGCATGCCAATATCC
EST: gi|352764588|gb|FQ472945.1|FQ472945
EST:     TTAGGGTTTTCCACAATCTCCAGTCATGCAAGCGCCAGTGCTGGTTCTCA                         AGGATTCTTTGACTCGCGAATCAGGAAGTAAGGTCCAGCATGCCAATATCC
genomic: TTAGGGTTTTCCACAATCTCCAGTCATGCAAGCGCCAGTGCTGGTTCTCAgtgagtcccc ... aaatttgcagAGGATTCTTTGACTCGCGAATCAGGAAGTAAGGTCCAGCATGCCAATATCC
EST: gi|37189192|gb|CF608541.1|CF608541
EST:     TTAGGGTTTTCCACAATCTCCAGTCATGCAAGCGCCAGTGCTGGTTCTCA                         AGGATTCTTTGACTCGCGAATCAGGAAGTAAGGTCCAGCATGCCAATATCC
genomic: TTAGGGTTTTCCACAATCTCCAGTCATGCAAGCGCCAGTGCTGGTTCTCAgtgagtcccc ... aaatttgcagAGGATTCTTTGACTCGCGAATCAGGAAGTAAGGTCCAGCATGCCAATATCC
EST: gi|352769725|gb|FQ468653.1|FQ468653
EST:     TTAGGGTTTTCCACAATCTCCAGTCATGCAAGCGCCAGTGCTGGTTCTCA                         AGGATTCTTTGACTCGCGAATCAGGAAGTAAGGTCCAGCATGCCAATATCC
genomic: TTAGGGTTTTCCACAATCTCCAGTCATGCAAGCGCCAGTGCTGGTTCTCAgtgagtcccc ... aaatttgcagAGGATTCTTTGACTCGCGAATCAGGAAGTAAGGTCCAGCATGCCAATATCC
EST: gi|71857425|gb|DT006480.1|DT006480
EST:     TTAGGGTTTTCCACAATCTCCAGTCATGCAAGCGCCAGTGCTGGTTCTCA                         AGGATTCTTTGACTCGCGAATCGGGAAGTAAGGTCCAGCATGCCAATATCC
genomic: TTAGGGTTTTCCACAATCTCCAGTCATGCAAGCGCCAGTGCTGGTTCTCAgtgagtcccc ... aaatttgcagAGGATTCTTTGACTCGCGAATCAGGAAGTAAGGTCCAGCATGCCAATATCC
EST: gi|71857213|gb|DT006268.1|DT006268
EST:     TTAGGGTTTTCCACAATCTCCAGTCATGCAAGCGCCAGTGCTGGTTCTCA                         AGGATTCTTTGACTCGCGAATCGGGAAGTAAGGTCCAGCATGCCAATATCC
genomic: TTAGGGTTTTCCACAATCTCCAGTCATGCAAGCGCCAGTGCTGGTTCTCAgtgagtcccc ... aaatttgcagAGGATTCTTTGACTCGCGAATCAGGAAGTAAGGTCCAGCATGCCAATATCC
EST: gi|71857633|gb|DT006688.1|DT006688
EST:     TTAGGGTTTTCCACAATCTCCAGTCATGCAAGCGCCAGTGCTGGTTCTCA                         AGGATTCTTTGACTCGCGAATCGGGAAGTAAGGTCCAGCATGCCAATATCC
genomic: TTAGGGTTTTCCACAATCTCCAGTCATGCAAGCGCCAGTGCTGGTTCTCAgtgagtcccc ... aaatttgcagAGGATTCTTTGACTCGCGAATCAGGAAGTAAGGTCCAGCATGCCAATATCC
EST: gi|71857432|gb|DT006487.1|DT006487
EST:     TTAGGGTTTTCCACAATCTCCAGTCATGCAAGCGCCAGTGCTGGTTCTCA                         AGGATTCTTTGACTCGCGAATCAGGAAGTAAGGTCCAGCATGCCAATATCC
genomic: TTAGGGTTTTCCACAATCTCCAGTCATGCAAGCGCCAGTGCTGGTTCTCAgtgagtcccc ... aaatttgcagAGGATTCTTTGACTCGCGAATCAGGAAGTAAGGTCCAGCATGCCAATATCC
EST: gi|71859366|gb|DT008421.1|DT008421
EST:     TTAGGGTTTTCCACAATCTCCAGTCATGCAAGCGCCAGTGCTGGTTCTCA                         AGGATTCTTTGACTCGCGAATCGGGAAGTAAGGTCCAGCATGCCAATATCC
genomic: TTAGGGTTTTCCACAATCTCCAGTCATGCAAGCGCCAGTGCTGGTTCTCAgtgagtcccc ... aaatttgcagAGGATTCTTTGACTCGCGAATCAGGAAGTAAGGTCCAGCATGCCAATATCC
EST: gi|71857184|gb|DT006239.1|DT006239
EST:     TTAGGGTTTTCCACAATCTCCAGTCATGCAAGCGCCAGTGCTGGTTCTCA                         AGGATTCTTTGACTCGCGAATCAGGAAGTAAGGTCCAGCATGCCAATATCC
genomic: TTAGGGTTTTCCACAATCTCCAGTCATGCAAGCGCCAGTGCTGGTTCTCAgtgagtcccc ... aaatttgcagAGGATTCTTTGACTCGCGAATCAGGAAGTAAGGTCCAGCATGCCAATATCC
EST: gi|71856945|gb|DT006000.1|DT006000
EST:     TTAGGGTTTTCCACAATCTCCAGTCATGCAAGCGCCAGTGCTGGTTCTCA                         AGGATTCTTTGACTCGCGAATCAGGAAGTAAGGTCCAGCATGCCAATATCC
genomic: TTAGGGTTTTCCACAATCTCCAGTCATGCAAGCGCCAGTGCTGGTTCTCAgtgagtcccc ... aaatttgcagAGGATTCTTTGACTCGCGAATCAGGAAGTAAGGTCCAGCATGCCAATATCC
EST: gi|71857006|gb|DT006061.1|DT006061
EST:     TTAGGGTTTTCCACAATCTCCAGTCATGCAAGCGCCAGTGCTGGTTCTCA                         AGGATTCTTTGACTCGCGAATCAGGAAGTAAGGTCCAGCATGCCAATATCC
genomic: TTAGGGTTTTCCACAATCTCCAGTCATGCAAGCGCCAGTGCTGGTTCTCAgtgagtcccc ... aaatttgcagAGGATTCTTTGACTCGCGAATCAGGAAGTAAGGTCCAGCATGCCAATATCC
EST: gi|71858194|gb|DT007249.1|DT007249
EST:     TTAGGGTTTTCCACAATCTCCAGTCATGCAAGCGCCAGTGCTGGTTCTCA                         AGGATTCTTTGACTCGCGAATCAGGAAGTAAGGTCCAGCATGCCAATATCC
genomic: TTAGGGTTTTCCACAATCTCCAGTCATGCAAGCGCCAGTGCTGGTTCTCAgtgagtcccc ... aaatttgcagAGGATTCTTTGACTCGCGAATCAGGAAGTAAGGTCCAGCATGCCAATATCC
EST: gi|71855063|gb|DT004118.1|DT004118
EST:     TTAGGGTTTTCCACAATCTCCAGTCATGCAAGCGCCAGTGCTGGTTCTCA                         AGGATTCTTTGACTCGCGAATCAGGAAGTAAGGTCCAGCATGCCAATATCC
genomic: TTAGGGTTTTCCACAATCTCCAGTCATGCAAGCGCCAGTGCTGGTTCTCAgtgagtcccc ... aaatttgcagAGGATTCTTTGACTCGCGAATCAGGAAGTAAGGTCCAGCATGCCAATATCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttagtttagaaatatatgatctctctaattgcttggtgtaatttaaaatttgcagAGGATTCTTTGACTCGCGAATCAGGAAGTAAGGTCCAGCATGCCAATATCCAAGCGTCAAAG
                      ctctaat  putative branch site (score: 3)
                                    tgtaatttaaaattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtagtcactcattgggatttccgttaatgcaagtgtactcaacaattagtttagaaatatatgatctctctaattgcttggtgtaatttaaaatttgcagAGGATTCTTTGACTCGCGAATCAGGAAGTAAGGTCCAGCATGCCAATATCCAAGCGTCAAAG

- - -cactcat
- - - - - - - - - - - - -aatgcaa
- - - - - - - - - - - - - - - - - - -ctcaaca
- - - - - - - - - - - - - - - - - - - - - - - - - - agaaata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgcttgg