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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGTCAAGGGTATATTTCCTACAGTCAGTTTGAACTTTGCTGGTGGTGTATCTATGAATCTAAAACCTGAGGACTACCTTCTACAGCAGAATTCCATTgtgagatgtttaacttcaattttttcttctctttaaccgttaagagttcatttggatatcttttgtttgtattgaaattaagagctgagcttgggaggag...

Basic information

species Vitis vinifera
transcript Vv06s0061g01030.t01
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv06s0061g01030.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: GLYMA17G05490.1 (Glycine max), 5'ss of exon 7
TGTCAAGGGTATATTTCCTACAGTCAGTTTGAACTTTGCTGGTGGTGTATCTATGAATCTAAAACCTGAGGACTACCTTCTACAGCAGAATTCCATTgtgagatgtttaacttcaattttttcttctc---tttaaccgttaagagttcatttggatatcttttgtttgtattgaaattaagagctgagcttgggaggag-
|||||  |   | ||||||  ||| ||| |||||||||||||||||| |||||||| | |||  ||| ||||||||||  ||||||||||||||||||| ||   |  ||||| |||||| |     |   | |        ||| |||     |||||   || ||    |  || |   ||| ||   |||  |   | 
TGTCACTGAAGTTTTTCCTCAAGTAAGTCTGAACTTTGCTGGTGGTGCATCTATGATTTTAAGGCCTCAGGACTACCTGATACAGCAGAATTCCATTgtaagtattcaaactttaattttctgaggactagtctggattcctagatttc-caaagatattgatttttcaagtcaaagt---gagttgcaattgacaatggt

upper sequence: Vv06s0061g01030.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: AT5G22850.1 (Arabidopsis thaliana), 5'ss of exon 7
TGTCAAGGGTATATTTCCTACAGTCAGTTTGAACTTTGCTGGTGGTGTATCTATGAATCTAAAACCTGAGGACTACCTTCTACAGCAGAATTCCATTgtgagatgtttaactt-caattttttctt-------ctctttaaccgttaagagttcatttg------------gatatcttttgtttgtattgaaattaagagctgagcttgggaggag----------
||||   |  ||||||||| |||| || ||||||||||||||||| | |||||||    | || ||| |||| |||||  ||||||||||     | || ||   |||||||  |||  ||||| |          ||| |   |    |  |   |||            ||  | |||| ||| | ||     ||  |  |  || |  |               
TGTCGGAGACATATTTCCTCCAGTTAGCTTGAACTTTGCTGGTGGAGCATCTATGTTCTTGAATCCTCAGGATTACCTCATACAGCAGAACAATGTCgtaagcactttaactcgcaaccttttcataggaacctggtttcagaatctgaacctaccttgacctgaaacagtgagtttttttttttctgttcctggtataacattggcctctgcactctgctttctag
















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|352791504|gb|FQ481083.1|FQ481083
EST:     TATCTATGAATCTAAAACCTGAGGACTACCTTCTACAGCAGAATTCCATT                         GGTGATGCTGCAGTGTGGTGCATTGGCTTTCAAAAAATTCAAGGTCAAGGA
genomic: TATCTATGAATCTAAAACCTGAGGACTACCTTCTACAGCAGAATTCCATTgtgagatgtt ... atcattacagGGTGATGCTGCAGTGTGGTGCATTGGCTTTCAAAAAATTCAAGGTCAAGGA
EST: gi|351043367|gb|FQ451419.1|FQ451419
EST:     TATCTATGAATCTAAAACCTGAGGACTACCTTCTACAGCAGAATTCCATT                         GGTGATGCTGCAGTGTGGTGCATTGGCTTTCAAAAAATTCAAGGTCAAGGA
genomic: TATCTATGAATCTAAAACCTGAGGACTACCTTCTACAGCAGAATTCCATTgtgagatgtt ... atcattacagGGTGATGCTGCAGTGTGGTGCATTGGCTTTCAAAAAATTCAAGGTCAAGGA
EST: gi|352789949|gb|FQ479559.1|FQ479559
EST:     TATCTATGAATCTAAAACCTGAGGACTACCTTCTACAGCAGAATTCCATT                         GGTGATGCTGCAGTGTGGTGCATTGGCTTTCAAAAAATTCAAGGTCAAGGA
genomic: TATCTATGAATCTAAAACCTGAGGACTACCTTCTACAGCAGAATTCCATTgtgagatgtt ... atcattacagGGTGATGCTGCAGTGTGGTGCATTGGCTTTCAAAAAATTCAAGGTCAAGGA
EST: gi|349811312|gb|FQ407538.1|FQ407538
EST:     TATCTATGAATCTAAAACCTGAGGACTACCTTCTACAGCAGAATTCCATT                         GGTGATGCTGCAGTGTGGTGCATTGGCTTTCCAAAAATTCAAGGTCAAGGA
genomic: TATCTATGAATCTAAAACCTGAGGACTACCTTCTACAGCAGAATTCCATTgtgagatgtt ... atcattacagGGTGATGCTGCAGTGTGGTGCATTGGCTTTCAAAAAATTCAAGGTCAAGGA
EST: gi|110732513|gb|EE107864.1|EE107864
EST:     ACTACCTTCTACAGCAGAATTCCATT                         GGTGATGCTGCAGTGTGGTGCATTGGCTTTCAAAAAATTCAAGGTCAAGGA
genomic: ACTACCTTCTACAGCAGAATTCCATTgtgagatgtt ... atcattacagGGTGATGCTGCAGTGTGGTGCATTGGCTTTCAAAAAATTCAAGGTCAAGGA
EST: gi|351057266|gb|FQ450973.1|FQ450973
EST:     TATCTATGAATCTAAAACCTGAGGACTACCTTCTACAGCAGAATTCCATT                         GGTGATGCTGCAGTGTGGTGCATTGGCTTTCAAAAAATTCAAGGTCAAGGA
genomic: TATCTATGAATCTAAAACCTGAGGACTACCTTCTACAGCAGAATTCCATTgtgagatgtt ... atcattacagGGTGATGCTGCAGTGTGGTGCATTGGCTTTCAAAAAATTCAAGGTCAAGGA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGTCAAGGGTATATTTCCTACAGTCAGTTTGAACTTTGCTGGTGGTGTATCTATGAATCTAAAACCTGAGGACTACCTTCTACAGCAGAATTCCATTgtgagatgtttaacttcaattttttcttctctttaaccgttaagagttcatttggatatcttttgtttgtattgaaattaagagctgagcttgggaggag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - attgaaa