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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttggttgaatttctgtgctattcatcttgttcgattttgttaaacagttctgtgattttgattcatgggtcttttgtttttgtcagGGCGTTGAAGCTGAGCGTGCTGAGGTGGTGGATGGAAACTGCGAAGGTGTTGGAGAAGACGAGTGCTTGATGAGAAGAACCCTTGCAGCTCACATCGATT

Basic information

species Vitis vinifera
transcript Vv00s1328g00020.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|110389266|gb|EC954090.1|EC954090
EST:     GCCCACAGCCAGCCTCTTTCCACGATTTTCCTGGGAAAACTCAACACGGG                         GGCGTTGAAGCTGAGCGTGCTGAGGTGGTGGATGAAAACTGCGAAGGTCTT
genomic: GCCCACAGCCAGCCTCTCCCCACGATTTTCCTGGGAAAACTCAACACGGGgttggttgaa ... tttttgtcagGGCGTTGAAGCTGAGCGTGCTGAGGTGGTGGATGGAAACTGCGAAGGTGTT
EST: gi|110420828|gb|EC987110.1|EC987110
EST:     GCCCACAGCCAGCCTCTCCCCACGATTTTCCTGGGAAAACTCAACACGGG                         GGCGTTGAAGCTGAGCGTGCTGAGGTGGTGGATGGAAACTGCGAAGGTGTT
genomic: GCCCACAGCCAGCCTCTCCCCACGATTTTCCTGGGAAAACTCAACACGGGgttggttgaa ... tttttgtcagGGCGTTGAAGCTGAGCGTGCTGAGGTGGTGGATGGAAACTGCGAAGGTGTT
EST: gi|110407572|gb|EC973174.1|EC973174
EST:     GCCCACAGCCAGCCTCTCCCCACGATTTTCCTGGGAAAACTCAACACGGG                         GGCGTTGAAGCTGAGCGTGCTGAGGTGGTGGATGAAAACTGCGAAGGTCTT
genomic: GCCCACAGCCAGCCTCTCCCCACGATTTTCCTGGGAAAACTCAACACGGGgttggttgaa ... tttttgtcagGGCGTTGAAGCTGAGCGTGCTGAGGTGGTGGATGGAAACTGCGAAGGTGTT
EST: gi|30321652|gb|CD004914.1|CD004914
EST:     GCCCACAGCCAGCCTCTCCCCACGATTTTCCTGGGAAAACTCAACACGGG                         GGCGTTGAAGCTGAGCGTGCTGAGGTGGTGGATGGAAACTGCGAAGGTGTT
genomic: GCCCACAGCCAGCCTCTCCCCACGATTTTCCTGGGAAAACTCAACACGGGgttggttgaa ... tttttgtcagGGCGTTGAAGCTGAGCGTGCTGAGGTGGTGGATGGAAACTGCGAAGGTGTT
EST: gi|27581375|gb|CB004070.1|CB004070
EST:     GCCCACAGCCAGCCTCTCCCCACGATTTTCCTGGGAAAACTCAACACGGG                         GGCGTTGAAGCTGAGCGTGCTGAGGTGGTGGATGGAAACTGCGAAGGTGTT
genomic: GCCCACAGCCAGCCTCTCCCCACGATTTTCCTGGGAAAACTCAACACGGGgttggttgaa ... tttttgtcagGGCGTTGAAGCTGAGCGTGCTGAGGTGGTGGATGGAAACTGCGAAGGTGTT
EST: gi|254917032|gb|GR905858.1|GR905858
EST:     GCCCACAGCCAGCCTCTCTCCACGATTTTCCTGGGAAAACTCAACACGGG                         GGCGTTGAAGCTGAGCGTGCTGAGGTGGTGGATGAAAACTGCGAAGGTCTT
genomic: GCCCACAGCCAGCCTCTCCCCACGATTTTCCTGGGAAAACTCAACACGGGgttggttgaa ... tttttgtcagGGCGTTGAAGCTGAGCGTGCTGAGGTGGTGGATGGAAACTGCGAAGGTGTT
EST: gi|110382653|gb|EC946967.1|EC946967
EST:     GCCCACAGCCAGCCTCTCCCCACGATTTTCCTGGGAAAACTCAACACGGG                         GGCGTTGAAGCTGAGCGTGCTGAGGTGGTGGATGAAAACTGCGAAGGTCTT
genomic: GCCCACAGCCAGCCTCTCCCCACGATTTTCCTGGGAAAACTCAACACGGGgttggttgaa ... tttttgtcagGGCGTTGAAGCTGAGCGTGCTGAGGTGGTGGATGGAAACTGCGAAGGTGTT
EST: gi|87585799|gb|DY474369.1|DY474369
EST:     GCCCACAGCCAGCCTCTCCCCACGATTTTCCTGGGAAAACTCAACACGGG                         GGCGTTGAAGCTGAGCGTGCTGAGGTGGTGGATGAAAACTGCGAAGGTCTT
genomic: GCCCACAGCCAGCCTCTCCCCACGATTTTCCTGGGAAAACTCAACACGGGgttggttgaa ... tttttgtcagGGCGTTGAAGCTGAGCGTGCTGAGGTGGTGGATGGAAACTGCGAAGGTGTT
EST: gi|32246509|gb|CD712328.1|CD712328
EST:     CCAGCCTCTCCCCACGATTTTCCTGGGAAAACTCAACACGGG                         GGCGTTGAAGCTGAGCGTGCTGAGGTGGTGGATGGAAACTGCGAAGGTGTT
genomic: CCAGCCTCTCCCCACGATTTTCCTGGGAAAACTCAACACGGGgttggttgaa ... tttttgtcagGGCGTTGAAGCTGAGCGTGCTGAGGTGGTGGATGGAAACTGCGAAGGTGTT
EST: gi|110385480|gb|EC950012.1|EC950012
EST:     GCCCACAGCCAGCCTCTCTCCACGATTTTCCTGGGAAAACTCAACACGGG                         GGCGTTGAAGCTGAGCGTGCTGAGGTGGTGGATGAAAACTGCGAAGGTCTT
genomic: GCCCACAGCCAGCCTCTCCCCACGATTTTCCTGGGAAAACTCAACACGGGgttggttgaa ... tttttgtcagGGCGTTGAAGCTGAGCGTGCTGAGGTGGTGGATGGAAACTGCGAAGGTGTT
EST: gi|110394466|gb|EC959465.1|EC959465
EST:     GCCCACAGCCAGCCTCTCTCCACGATTTTCCTGGGAAAACTCAACACGGG                         GGCGTTGAAGCTGAGCGTGCTGAGGTGGTGGATGAAAACTGCGAAGGTCTT
genomic: GCCCACAGCCAGCCTCTCCCCACGATTTTCCTGGGAAAACTCAACACGGGgttggttgaa ... tttttgtcagGGCGTTGAAGCTGAGCGTGCTGAGGTGGTGGATGGAAACTGCGAAGGTGTT
EST: gi|110383220|gb|EC947578.1|EC947578
EST:     GCCCACAGCCAGCCTCTCTCCACGATTTTCCTGGGAAAACTCAACACGGG                         GGCGTTGAAGCTGAGCGTGCTGAGGTGGTGGATGAAAACTGCGAAGGTCTT
genomic: GCCCACAGCCAGCCTCTCCCCACGATTTTCCTGGGAAAACTCAACACGGGgttggttgaa ... tttttgtcagGGCGTTGAAGCTGAGCGTGCTGAGGTGGTGGATGGAAACTGCGAAGGTGTT
EST: gi|254914651|gb|GR906752.1|GR906752
EST:     GCCCACAGCCAGCCTCTCTCCACGATTTTCCTGGGAAAACTCAACACGGG                         GGCGTTGAAGCTGAGCGTGCTGAGGTGGTGGATGAAAACTGCGAAGGTCTT
genomic: GCCCACAGCCAGCCTCTCCCCACGATTTTCCTGGGAAAACTCAACACGGGgttggttgaa ... tttttgtcagGGCGTTGAAGCTGAGCGTGCTGAGGTGGTGGATGGAAACTGCGAAGGTGTT
EST: gi|30130085|gb|CB915424.1|CB915424
EST:     GCCCACAGCCAGCCTCTCCCCACGATTTTCCTGGGAAAACTCAACACGGG                         GGCGTTGAAGCTGAGCGTGCTGAGGTGGTGGATGGAAACTGCGAAGGTGTT
genomic: GCCCACAGCCAGCCTCTCCCCACGATTTTCCTGGGAAAACTCAACACGGGgttggttgaa ... tttttgtcagGGCGTTGAAGCTGAGCGTGCTGAGGTGGTGGATGGAAACTGCGAAGGTGTT
EST: gi|110401108|gb|EC967703.1|EC967703
EST:     GCCCACAGCCAGCCTCTCCCCACGATTTTCCTGGGAAAACTCAACACGGG                         GGCGTTGAAGCTGAGCGTGCTGAGGTGGTGGATGAAAACTGCGAAGGTCTT
genomic: GCCCACAGCCAGCCTCTCCCCACGATTTTCCTGGGAAAACTCAACACGGGgttggttgaa ... tttttgtcagGGCGTTGAAGCTGAGCGTGCTGAGGTGGTGGATGGAAACTGCGAAGGTGTT
EST: gi|32246874|gb|CD712693.1|CD712693
EST:     GCCCACAGCCAGCCTCTCCCCACGATTTTCCTGGGAAAACTCAACACGGG                         GGCGTTGAAGCTGAGCGTGCTGAGGTGGTGGATGGAAACTGCGAAGGTGTT
genomic: GCCCACAGCCAGCCTCTCCCCACGATTTTCCTGGGAAAACTCAACACGGGgttggttgaa ... tttttgtcagGGCGTTGAAGCTGAGCGTGCTGAGGTGGTGGATGGAAACTGCGAAGGTGTT
EST: gi|37189927|gb|CF609276.1|CF609276
EST:     GCCCACAGCCAGCCTCTCCCCACGATTTTCCTGGGAAAACTCAACACGGG                         GGCGTTGAAGCTGAGCGTGCTGAGGTGGTGGATGAAAACTGCGAAGGTCTT
genomic: GCCCACAGCCAGCCTCTCCCCACGATTTTCCTGGGAAAACTCAACACGGGgttggttgaa ... tttttgtcagGGCGTTGAAGCTGAGCGTGCTGAGGTGGTGGATGGAAACTGCGAAGGTGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgattttgttaaacagttctgtgattttgattcatgggtcttttgtttttgtcagGGCGTTGAAGCTGAGCGTGCTGAGGTGGTGGATGGAAACTGCGAAGGTGTTGGAGAAGACGAGTGCTTGATGAGAAGAACCCTTGCAGCTCACATCGATT
                        ttttgat  putative branch site (score: 4)
                                      tcttttgtttttgtc  putative PPT
                                        ttttgttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttggttgaatttctgtgctattcatcttgttcgattttgttaaacagttctgtgattttgattcatgggtcttttgtttttgtcagGGCGTTGAAGCTGAGCGTGCTGAGGTGGTGGATGGAAACTGCGAAGGTGTTGGAGAAGACGAGTGCTTGATGAGAAGAACCCTTGCAGCTCACATCGATT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTCA