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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CCTCCTGAAGCATGGAACGGTGGCGTCGGGTTTGTATCCAAGGAAATGATCAAGGCCCATTGCCCTGCACCTGCATCTGACATTAAGgtaggtttgcttctgggttcatgcccacaaaacccttgaacatgttagtctcatatcatggtctgggcttgatgtttaacctttgatccaaatctgcag

Basic information

species Vitis vinifera
transcript Vv08s0056g01150.t01
intron # 8
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv08s0056g01150.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: GRMZM2G157263_T01 (Zea mays), 5'ss of exon 8
CCTCCTGAAGCATGGAACGGTGGCGTCGGGTTTGTATCCAAGGAAATGATCAAGGCCCATTGCCCTGCACCTGCATCTGACATTAAGgtaggtttgcttctgggttcatgcccacaaaacccttgaacatgttagtctcatatcat-ggtctgggcttgatgtt--taacctttgatccaaatctgcag
||||||||||  ||| |||||||||||||||| || || |||||||||||| || | |||||||| || |||||  | |||||| ||||| | ||  ||| || |     |  | |  |   |     |  || |        |||  || |  ||| | ||    | |  |  | |     | | |||
CCTCCTGAAGTCTGGGACGGTGGCGTCGGGTTCGTGTCGAAGGAAATGATCCAGACTCATTGCCCAGCGCCTGCCGCCGACATTCAGgtaagctt--ttccggtt----actgaaagtattttgagggaacttggatgggggccatcagtttttgctcggtggaagtcagatcagttttccgttttcag

upper sequence: Vv08s0056g01150.t01 (Vitis vinifera), 5'ss of exon 8
lower sequence: AT5G17770.1 (Arabidopsis thaliana), 5'ss of exon 8
CCTCCTGAAGCATGGAACGGTGGCGTCGGGTTTGTATCCAAGGAAATGATCAAGGCCCATTGCCCTGCACCTGCATCTGACATTAAGgtaggtttgcttctgggttcatgccc--acaaaacccttgaacatgttagtctcatatcatggtctgggcttgatgtttaacctttgatccaaatctgcag-
||||| |||| |||| | ||||| || || |||||||| |||||||||||  || | ||||||||||||||||||||||| ||| |||||      | ||||   |    |    ||| ||||  | | ||   |      ||   ||  ||   |  ||    |     |   | | |||||   |  
CCTCCGGAAGTATGGGATGGTGGTGTTGGATTTGTATCAAAGGAAATGATTCAGACTCATTGCCCTGCACCTGCATCTGATATTCAGgtataccctcctctgttcttgatcttgaacataaccaatcatcacaatttctaaattctataatcgatgagtgtcagt--gtttcaaagcaaaatcaagaac
















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|110691213|gb|EE069059.1|EE069059
EST:     CCAAGGAAATGATCAAGGCCCATTGCCCTGCACCTGCATCTGACATTAAG                         ATTCTCCGATGCGGTCCACCACCCATGAACAAGGCCATGGCCGCCATCCTC
genomic: CCAAGGAAATGATCAAGGCCCATTGCCCTGCACCTGCATCTGACATTAAGgtaggtttgc ... aaatctgcagATTCTCCGATGTGGTCCACCACCCATGAACAAGGCCATGGCCGCCATCCTC
EST: gi|37188279|gb|CF607628.1|CF607628
EST:     CCAAGGAAATGATCAAGGCCCATTGCCCTGCACCTGCATCTGACATTAAG                         ATTCTCCGATGTGGTCCACCACCCATGAACAAGGCCATGGCCGCCATCCTC
genomic: CCAAGGAAATGATCAAGGCCCATTGCCCTGCACCTGCATCTGACATTAAGgtaggtttgc ... aaatctgcagATTCTCCGATGTGGTCCACCACCCATGAACAAGGCCATGGCCGCCATCCTC
EST: gi|33406972|gb|CF212599.1|CF212599
EST:     CGATCGAAATGATCAAGGCCCATTGATCTGCACCTGCATCTGACATTAAG                         ATTCTCCGATGTGGTCCACCACCCATGA
genomic: CCAAGGAAATGATCAAGGCCCATTGCCCTGCACCTGCATCTGACATTAAGgtaggtttgc ... aaatctgcagATTCTCCGATGTGGTCCACCACCCATGA
EST: gi|33407295|gb|CF212922.1|CF212922
EST:     CCAAGGAAATGATCAAGGCCCATTGCCCTGCACCTGCATCTGACATTAAG                         ATTTTCCGATGCGGTCCACCACCCATGAACAAGGCCATGGCCGCCATCCTC
genomic: CCAAGGAAATGATCAAGGCCCATTGCCCTGCACCTGCATCTGACATTAAGgtaggtttgc ... aaatctgcagATTCTCCGATGTGGTCCACCACCCATGAACAAGGCCATGGCCGCCATCCTC
EST: gi|110375510|gb|EC940502.1|EC940502
EST:     CCAAGGAAATGATCAAGGCCCATTGCCCTGCACCTGCATCTGACATTAAG                         ATTCTCCGATGCGGTCCACCACCCATGAACAAGGCCATGGCCGCCATCCTC
genomic: CCAAGGAAATGATCAAGGCCCATTGCCCTGCACCTGCATCTGACATTAAGgtaggtttgc ... aaatctgcagATTCTCCGATGTGGTCCACCACCCATGAACAAGGCCATGGCCGCCATCCTC
EST: gi|110427483|gb|EC993922.1|EC993922
EST:     CTGACATTAAG                         ATTCTCCGATGTGGTCCACCACCCATGAACAAGGCCATGGCCGCCATCCTC
genomic: CTGACATTAAGgtaggtttgc ... aaatctgcagATTCTCCGATGTGGTCCACCACCCATGAACAAGGCCATGGCCGCCATCCTC
EST: gi|110384799|gb|EC949262.1|EC949262
EST:     CCAAGGAAATGATCAAGGCCCATTGCCCTGCACCTGCATCTGACATTAAG                         ATTCTCCGATGCGGTCCACCACCCATGAACAAGGCCATGGCCGCCATCCTC
genomic: CCAAGGAAATGATCAAGGCCCATTGCCCTGCACCTGCATCTGACATTAAGgtaggtttgc ... aaatctgcagATTCTCCGATGTGGTCCACCACCCATGAACAAGGCCATGGCCGCCATCCTC
EST: gi|110397391|gb|EC963126.1|EC963126
EST:     CCAAGGAAATGATCAAGGCCCATTGCCCTGCACCTGCATCTGACATTAAG                         ATTCTCCGATGTGGTCCACCACCCATGAACAAGGCCATGGCCGCCATCCTC
genomic: CCAAGGAAATGATCAAGGCCCATTGCCCTGCACCTGCATCTGACATTAAGgtaggtttgc ... aaatctgcagATTCTCCGATGTGGTCCACCACCCATGAACAAGGCCATGGCCGCCATCCTC
EST: gi|33406880|gb|CF212507.1|CF212507
EST:     CCAAGGAAATGATCAAGGCCCATTGCCCTGCACCTGCATTTGACATTAAG                         ATTTTCCGATGTGGTCCACCACCCATGAACAAGGCCATGGCCGCCATCCTC
genomic: CCAAGGAAATGATCAAGGCCCATTGCCCTGCACCTGCATCTGACATTAAGgtaggtttgc ... aaatctgcagATTCTCCGATGTGGTCCACCACCCATGAACAAGGCCATGGCCGCCATCCTC
EST: gi|33407387|gb|CF213014.1|CF213014
EST:     CCAAGGAAATGATCAAGGCCCATTGCCCTGCACCTGCATCTGACATTAAG                         ATTCTCCGATGCGGTCCACCACCCATGAACAAGGCCATGGCCGCCATCCTC
genomic: CCAAGGAAATGATCAAGGCCCATTGCCCTGCACCTGCATCTGACATTAAGgtaggtttgc ... aaatctgcagATTCTCCGATGTGGTCCACCACCCATGAACAAGGCCATGGCCGCCATCCTC
EST: gi|110371220|gb|EC935065.1|EC935065
EST:     CCAAGGAAATGATCAAGGCCCATTGCCCTGCACCTGCATCTGACATTAAG                         ATTCTCCGATGCGGTCCACCACCCATGAACAAGGCCATGGCCGCCATCCTC
genomic: CCAAGGAAATGATCAAGGCCCATTGCCCTGCACCTGCATCTGACATTAAGgtaggtttgc ... aaatctgcagATTCTCCGATGTGGTCCACCACCCATGAACAAGGCCATGGCCGCCATCCTC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
CCTCCTGAAGCATGGAACGGTGGCGTCGGGTTTGTATCCAAGGAAATGATCAAGGCCCATTGCCCTGCACCTGCATCTGACATTAAGgtaggtttgcttctgggttcatgcccacaaaacccttgaacatgttagtctcatatcatggtctgggcttgatgtttaacctttgatccaaatctgcag

- - - - - - - - - - - - - - - - - - -  AAGGAA