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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aattcacctctcttgtgcacctacattggcaacgacgatgatcgacttcccttattttacgactcaatccgaccctaatgttatcatctctcttctgcagACTCTAACCCAAGCATTGGCAACAGCACGTGAACATTTGACAAGATCCCTTCTCAAATGATACGCACTGCAAATGAGTTGGCTTCCCTTTCTTTTGTGAT

Basic information

species Vitis vinifera
transcript Vv09s0002g01710.t01
intron # 5
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|110729434|gb|EE105385.1|EE105385
EST:     GAAAAGTAGCAGCTCATAGCATTGATGCTGGAGCTCCATTATCTGAGCAG                         ACTCTAACCCAAGCATTGGCAACAGCACGTGAACATTTGACAAGATCCCTT
genomic: GAAAAGTAGCAGCTCATAGCATTGATGCTGGAGCTCCATTATCTGAGCAGgtgacatgac ... tcttctgcagACTCTAACCCAAGCATTGGCAACAGCACGTGAACATTTGACAAGATCCCTT
EST: gi|110689128|gb|EE065079.1|EE065079
EST:     GAAAAGTAGCAGCTCATAGCATTGATGCTGGAGCTCCATTATCTGAGCAG                         ACTCTAACCCAAGCATTGGCAACAGCACGTGAACATTTGACAAGATCCCTT
genomic: GAAAAGTAGCAGCTCATAGCATTGATGCTGGAGCTCCATTATCTGAGCAGgtgacatgac ... tcttctgcagACTCTAACCCAAGCATTGGCAACAGCACGTGAACATTTGACAAGATCCCTT
EST: gi|71882963|gb|DT032018.1|DT032018
EST:     GAAAAGTAGCAGCTCATAGCATTGATGCTGGAGCTCCATTATCTGAGCAG                         ACTCTAACCCAAGCATTGGCAACAGCACGTGAACATTTGACAAGATCCCTT
genomic: GAAAAGTAGCAGCTCATAGCATTGATGCTGGAGCTCCATTATCTGAGCAGgtgacatgac ... tcttctgcagACTCTAACCCAAGCATTGGCAACAGCACGTGAACATTTGACAAGATCCCTT
EST: gi|110715702|gb|EE094055.1|EE094055
EST:     GAAAAGTAGCAGCTCATAGCATTGATGCTGGAGCTCCATTATCTGAGCAG                         ACTCTAACCCAAGCATTGGCAACAGCACGTGAACATTTGACAAGATCCCTT
genomic: GAAAAGTAGCAGCTCATAGCATTGATGCTGGAGCTCCATTATCTGAGCAGgtgacatgac ... tcttctgcagACTCTAACCCAAGCATTGGCAACAGCACGTGAACATTTGACAAGATCCCTT
EST: gi|30298228|gb|CB975022.1|CB975022
EST:     GAAAAGTAGCAGCTCATAGCATTGATGCTGGAGCTCCATTATCTGAGCAG                         ACTCTAACCCAAGCATTGGCAACAGCACGTGAACATTTGACAAGATCCCTT
genomic: GAAAAGTAGCAGCTCATAGCATTGATGCTGGAGCTCCATTATCTGAGCAGgtgacatgac ... tcttctgcagACTCTAACCCAAGCATTGGCAACAGCACGTGAACATTTGACAAGATCCCTT
EST: gi|110376897|gb|EC941971.1|EC941971
EST:     GAAAAGTAGCAGCTCATAGCATTGATGCTGGAGCTCCATTATCTGAGCAG                         ACTCTAACCCAAGCATTGGCAACAGCACGTGAACATTTGACAAGATCCCTT
genomic: GAAAAGTAGCAGCTCATAGCATTGATGCTGGAGCTCCATTATCTGAGCAGgtgacatgac ... tcttctgcagACTCTAACCCAAGCATTGGCAACAGCACGTGAACATTTGACAAGATCCCTT
EST: gi|110694240|gb|EE071171.1|EE071171
EST:     GAAAAGTAGCAGCTCATAGCATTGATGCTGGAGCTCCATTATCTGAGCAG                         ACTCTAACCCAAGCATTGGCAACAGCACGTGAACATTTGACAAGATCCCTT
genomic: GAAAAGTAGCAGCTCATAGCATTGATGCTGGAGCTCCATTATCTGAGCAGgtgacatgac ... tcttctgcagACTCTAACCCAAGCATTGGCAACAGCACGTGAACATTTGACAAGATCCCTT
EST: gi|32460975|gb|CD802149.1|CD802149
EST:     GAAAAGTAGCAGCTCATAGCATTGATGCTGGAGCTCCATTATCTGAGCAG                         ACTCTAACCCAAGCATTGGCAACAGCACGTGAACATTTGACAAGATCCCTT
genomic: GAAAAGTAGCAGCTCATAGCATTGATGCTGGAGCTCCATTATCTGAGCAGgtgacatgac ... tcttctgcagACTCTAACCCAAGCATTGGCAACAGCACGTGAACATTTGACAAGATCCCTT
EST: gi|77583199|gb|DV220638.1|DV220638
EST:     GAAAAGTAGCAGCTCATAGCATTGATGCTGGAGCTCCATTATCTGAGCAG                         ACTCTAACCCAAGCATTGGCAACAGCACGTGAACATTTGACAAGATCCCTT
genomic: GAAAAGTAGCAGCTCATAGCATTGATGCTGGAGCTCCATTATCTGAGCAGgtgacatgac ... tcttctgcagACTCTAACCCAAGCATTGGCAACAGCACGTGAACATTTGACAAGATCCCTT
EST: gi|110723706|gb|EE101328.1|EE101328
EST:     GAAAAGTAGCAGCTCATAGCATTGATGCTGGAGCTCCATTATCTGAGCAG                         ACTCTAACCCAAGCATTGGCAACAGCACGTGAACATTTGACAAGATCCCTT
genomic: GAAAAGTAGCAGCTCATAGCATTGATGCTGGAGCTCCATTATCTGAGCAGgtgacatgac ... tcttctgcagACTCTAACCCAAGCATTGGCAACAGCACGTGAACATTTGACAAGATCCCTT
EST: gi|71875897|gb|DT024952.1|DT024952
EST:     GAAAAGTAGCAGCTCATAGCATTGATGCTGGAGCTCCATTATCTGAGCAG                         ACTCTAACCCAAGCATTGGCAACAGCACGTGAACATTTGACAAGATCCCTT
genomic: GAAAAGTAGCAGCTCATAGCATTGATGCTGGAGCTCCATTATCTGAGCAGgtgacatgac ... tcttctgcagACTCTAACCCAAGCATTGGCAACAGCACGTGAACATTTGACAAGATCCCTT
EST: gi|71873249|gb|DT022304.1|DT022304
EST:     GAAAAGTAGCAGCTCATAGCATTGATGCTGGAGCTCCATTATCTGAGCAG                         ACTCTAACCCAAGCATTGGCAACAGCACGTGAACATTTGACAAGATCCCTT
genomic: GAAAAGTAGCAGCTCATAGCATTGATGCTGGAGCTCCATTATCTGAGCAGgtgacatgac ... tcttctgcagACTCTAACCCAAGCATTGGCAACAGCACGTGAACATTTGACAAGATCCCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttcccttattttacgactcaatccgaccctaatgttatcatctctcttctgcagACTCTAACCCAAGCATTGGCAACAGCACGTGAACATTTGACAAGATCCCTTCTCAAATGATACGCACTGCAAATGAGTTGGCTTCCCTTTCTTTTGTGAT
                           ccctaat  putative branch site (score: 3)
                                   ttatcatctctcttct  CT-rich tract
      ttatttta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aattcacctctcttgtgcacctacattggcaacgacgatgatcgacttcccttattttacgactcaatccgaccctaatgttatcatctctcttctgcagACTCTAACCCAAGCATTGGCAACAGCACGTGAACATTTGACAAGATCCCTTCTCAAATGATACGCACTGCAAATGAGTTGGCTTCCCTTTCTTTTGTGAT

- - - cctctct
- - - - - - - - -cacctac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccgaccc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tcatctc