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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GAAGGGTTTGGATGCACGACTGAGAGAAATACGTGGTTATCTTGATCTTGTGGTTGATGGAAAGCTTCCTCTAAATCATGAGATTCTTTACCATCTCCAGgtagagtttgcttcatttatttgtacatttgcgtcctactgatgtcattagaatcctattttggagctaccttgatcacatatcttgctttctctgtatt...

Basic information

species Vitis vinifera
transcript Vv08s0007g01980.t01
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv08s0007g01980.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: AT5G05780.1 (Arabidopsis thaliana), 5'ss of exon 7
GAAGGGTTTGGATGCACGACTGAGAGAAATACGTGGTTATCTTGATCTTGTGGTTGATGGAAAGCTTCCTCTAAATCATGAGATTCTTTACCATCTCCAGgtagagtttgcttcatttatttgtacatttgcgtcctactgatgtcattagaatcctattttggagctaccttgatcacatatcttgctttctctgtatt-------------------------------------------------------------------
|||||| ||||||||||| ||  | || || ||  |||||||||| |||||  | || |||||||| |||||||| ||||||||| | |||||||| |||||      |   |      || ||   | ||  |  |||  ||   ||    |  ||||||   |    ||      |  | | ||||  ||| |  | |                                                                   
GAAGGGGTTGGATGCACGTCTTCGGGAGATCCGGAGTTATCTTGACCTTGTAATCGAAGGAAAGCTCCCTCTAAACCATGAGATTTTATACCATCTACAGgttagaactatatttccgtttcgtgt-tctgaattttacaaat--tatggagaaactatttgacaatgtccaaacctatgtgttttgcgctctttaaaatattctagtcactgtctctgctgttggttgatttcgtctaatgaaatatattctcgtaaaatcgacag
















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|110691663|gb|EE070021.1|EE070021
EST:     TGGTTGATGGAAAGCTTCCTCTAAATCATGAGATTCTTTACCATCTCCAG                         GATGTTTTCAACTTGCTTCCAAATCTCAATGTTGCTGAGTTAATCAAGGCA
genomic: TGGTTGATGGAAAGCTTCCTCTAAATCATGAGATTCTTTACCATCTCCAGgtagagtttg ... aaaattgcagGATGTTTTCAACTTGCTTCCAAATCTCAATGTTGCTGAGTTAATCAAGGCA
EST: gi|161713904|gb|FC062870.1|FC062870
EST:     TGGTTGATGGAAAGCTTCCTCTAAATCATGAGATTCTTTACCATCTCCAG                         GATGTTTTCAACTTGCTTCCAAATCTCAATGTTGCTGAGTTAATCAAGGCA
genomic: TGGTTGATGGAAAGCTTCCTCTAAATCATGAGATTCTTTACCATCTCCAGgtagagtttg ... aaaattgcagGATGTTTTCAACTTGCTTCCAAATCTCAATGTTGCTGAGTTAATCAAGGCA
EST: gi|32245274|gb|CD711093.1|CD711093
EST:     TGGTTGATGGAAAGCTTCCTCTAAATCATGAGATTCTTTACCATCTCCAG                         GATGTTTTCAACTTGCTTCCAAATCTCAATGTTGCTGAGTTAATCAAGGCA
genomic: TGGTTGATGGAAAGCTTCCTCTAAATCATGAGATTCTTTACCATCTCCAGgtagagtttg ... aaaattgcagGATGTTTTCAACTTGCTTCCAAATCTCAATGTTGCTGAGTTAATCAAGGCA
EST: gi|33406522|gb|CF212149.1|CF212149
EST:     TGGTTGATGGAAAGCTTCCTCTAAATCATGAGATTCTTTACCATCTCCAG                         GATGTTTTCAACTTGCTTCCAAATCTCAATGTTGCTGAGTTAATCAAGGCA
genomic: TGGTTGATGGAAAGCTTCCTCTAAATCATGAGATTCTTTACCATCTCCAGgtagagtttg ... aaaattgcagGATGTTTTCAACTTGCTTCCAAATCTCAATGTTGCTGAGTTAATCAAGGCA
EST: gi|110409702|gb|EC975372.1|EC975372
EST:     TGGTTGATGGAAAGCTTCCTCTAAATCATGAGATTCTTTACCATCTCCAG                         GATGTTTTCAACTTGCTTCCAAATCTCAATGTTGCTGAGTTAATCAAGGCA
genomic: TGGTTGATGGAAAGCTTCCTCTAAATCATGAGATTCTTTACCATCTCCAGgtagagtttg ... aaaattgcagGATGTTTTCAACTTGCTTCCAAATCTCAATGTTGCTGAGTTAATCAAGGCA
EST: gi|110380658|gb|EC945941.1|EC945941
EST:     TGGTTGATGGAAAGCTTCCTCTAAATCATGAGATTCTTTACCATCTCCAG                         GATGTTTTCAACTTGCTTCCAAATCTCAATGTTGCTGAGTTAATCAAGGCA
genomic: TGGTTGATGGAAAGCTTCCTCTAAATCATGAGATTCTTTACCATCTCCAGgtagagtttg ... aaaattgcagGATGTTTTCAACTTGCTTCCAAATCTCAATGTTGCTGAGTTAATCAAGGCA
EST: gi|110697690|gb|EE074900.1|EE074900
EST:     TGGTTGATGGAAAGCTTCCTCTAAATCATGAGATTCTTTACCATCTCCAG                         GATGTTTTCAACTTGCTTCCAAATCTCAATGTTGCTGAGTTAATCAAGGCA
genomic: TGGTTGATGGAAAGCTTCCTCTAAATCATGAGATTCTTTACCATCTCCAGgtagagtttg ... aaaattgcagGATGTTTTCAACTTGCTTCCAAATCTCAATGTTGCTGAGTTAATCAAGGCA
EST: gi|33406800|gb|CF212427.1|CF212427
EST:     TGGTTGATGGAAAGCTCCCTCTAAATCATGAGATTCTTTACCATCTCCAG                         GATGTTTTCAACTTGCTTCCAAATCTCAATGTTGCTGAGTTAATCAAGGCA
genomic: TGGTTGATGGAAAGCTTCCTCTAAATCATGAGATTCTTTACCATCTCCAGgtagagtttg ... aaaattgcagGATGTTTTCAACTTGCTTCCAAATCTCAATGTTGCTGAGTTAATCAAGGCA
EST: gi|26263205|gb|CA814268.1|CA814268
EST:     TGGTTGATGGAAAGCTTCCTCTAAATCATGAGATTCTTTACCATCTCCAG                         GATGTTTTCAACTTGCT-CCAAATCTCAATGTTGCTGAGTTAATCAAGGCA
genomic: TGGTTGATGGAAAGCTTCCTCTAAATCATGAGATTCTTTACCATCTCCAGgtagagtttg ... aaaattgcagGATGTTTTCAACTTGCTTCCAAATCTCAATGTTGCTGAGTTAATCAAGGCA
EST: gi|110418075|gb|EC984190.1|EC984190
EST:     TGGTTGATGGAAAGCTTCCTCTAAATCATGAGATTCTTTACCATCTCCAG                         GATGTTTTCAACTTGCTTCCAAATCTCAATGTTGCTGAGTTAATCAAGGCA
genomic: TGGTTGATGGAAAGCTTCCTCTAAATCATGAGATTCTTTACCATCTCCAGgtagagtttg ... aaaattgcagGATGTTTTCAACTTGCTTCCAAATCTCAATGTTGCTGAGTTAATCAAGGCA
EST: gi|33409710|gb|CF215337.1|CF215337
EST:     TGGTTGATGGAAAGCTTCCTCTAAATCATGAGATTCTTTACCATCTCCAG                         GATGTTTTCAACTTGCTTCCAAATCTCAATGTTGCTGAGTTAATCAAGGCA
genomic: TGGTTGATGGAAAGCTTCCTCTAAATCATGAGATTCTTTACCATCTCCAGgtagagtttg ... aaaattgcagGATGTTTTCAACTTGCTTCCAAATCTCAATGTTGCTGAGTTAATCAAGGCA
EST: gi|32458047|gb|CD799221.1|CD799221
EST:     ATGGAAAGCTTCCTCTCTAAATCATGAGATTCTTTACCATCTCCAG                         GATGTTTTCAACTTGCTTCCAAATCTCAATGTTGCTGAGTTAATCAAGGCA
genomic: ATGGAAAGCTT-C-CTCTAAATCATGAGATTCTTTACCATCTCCAGgtagagtttg ... aaaattgcagGATGTTTTCAACTTGCTTCCAAATCTCAATGTTGCTGAGTTAATCAAGGCA
EST: gi|30296907|gb|CB973701.1|CB973701
EST:     TGGTTGATGGAAAGCTTCCTCTAAATCATGAGATTCTTTACCATCTCCAG                         GATGTTTTCAACTTGCTTCCAAATCTCAATGTTGCTGAGTTAATCAAGGCA
genomic: TGGTTGATGGAAAGCTTCCTCTAAATCATGAGATTCTTTACCATCTCCAGgtagagtttg ... aaaattgcagGATGTTTTCAACTTGCTTCCAAATCTCAATGTTGCTGAGTTAATCAAGGCA
EST: gi|110409249|gb|EC974909.1|EC974909
EST:     TGGTTGATGGAAAGCTTCCTCTAAATCATGAGATTCTTTACCATCTCCAG                         GATGTTTTCAACTTGCTTCCAAATCTCAATGTTGCTGAGTTAATCAAGGCA
genomic: TGGTTGATGGAAAGCTTCCTCTAAATCATGAGATTCTTTACCATCTCCAGgtagagtttg ... aaaattgcagGATGTTTTCAACTTGCTTCCAAATCTCAATGTTGCTGAGTTAATCAAGGCA
EST: gi|30321841|gb|CD005103.1|CD005103
EST:     TGGTTGATGGAAAGCTTCCTCTAAATCATGAGATTCTTTACCATCTCCAG                         GATGTTTTCAACTTGCTTCCAAATCTCAATGTTGCTGAGTTAATCAAGGCA
genomic: TGGTTGATGGAAAGCTTCCTCTAAATCATGAGATTCTTTACCATCTCCAGgtagagtttg ... aaaattgcagGATGTTTTCAACTTGCTTCCAAATCTCAATGTTGCTGAGTTAATCAAGGCA
EST: gi|110387831|gb|EC952529.1|EC952529
EST:     TGGTTGATGGAAAGCTTCCTCTAAATCATGAGATTCTTTACCATCTCCAG                         GATGTTTTCAACTTGCTTCCAAATCTCAATGTTGCTGAGTTAATCAAGGCA
genomic: TGGTTGATGGAAAGCTTCCTCTAAATCATGAGATTCTTTACCATCTCCAGgtagagtttg ... aaaattgcagGATGTTTTCAACTTGCTTCCAAATCTCAATGTTGCTGAGTTAATCAAGGCA
EST: gi|110380016|gb|EC945251.1|EC945251
EST:     TGGTTGATGGAAAGCTTCCTCTAAATCATGAGATTCTTTACCATCTCCAG                         GATGTTTTCAACTTGCTTCCAAATCTCAATGTTGCTGAGTTAATCAAGGCA
genomic: TGGTTGATGGAAAGCTTCCTCTAAATCATGAGATTCTTTACCATCTCCAGgtagagtttg ... aaaattgcagGATGTTTTCAACTTGCTTCCAAATCTCAATGTTGCTGAGTTAATCAAGGCA
EST: gi|29783657|gb|CB349975.2|CB349975
EST:     GGTTGATGGAAAGCTTCCTCTAAATCATGAGATTCTTT-CTCATCTCCAG                         GATGTTTTCAACTTGCTTCCAAATCTCAATGTTGCTGAGTTAATCAAGGC
genomic: GGTTGATGGAAAGCTTCCTCTAAATCATGAGATTCTTTAC-CATCTCCAGgtagagtttg ... aaaattgcagGATGTTTTCAACTTGCTTCCAAATCTCAATGTTGCTGAGTTAATCAAGGC
EST: gi|110732758|gb|EE108326.1|EE108326
EST:     TGGTTGATGGAAAGCTTCCTCTAAATCATGAGATTCTTTACCATCTCCAG                         GATGTTTTCAACTTGCTTCCAAATCTCAATGTTGCTGAGTTAATCAAGGCA
genomic: TGGTTGATGGAAAGCTTCCTCTAAATCATGAGATTCTTTACCATCTCCAGgtagagtttg ... aaaattgcagGATGTTTTCAACTTGCTTCCAAATCTCAATGTTGCTGAGTTAATCAAGGCA
EST: gi|30124736|gb|CB910075.1|CB910075
EST:     TGGTTGATGGAAAGCTTCCTCTAAATCATGAGATTCTTTACCATCTCCAG                         GATGTTTTCAACTTGCTTCCAAATCTCAATGTTGCTGAGTTAATCAAGGCA
genomic: TGGTTGATGGAAAGCTTCCTCTAAATCATGAGATTCTTTACCATCTCCAGgtagagtttg ... aaaattgcagGATGTTTTCAACTTGCTTCCAAATCTCAATGTTGCTGAGTTAATCAAGGCA
EST: gi|33406603|gb|CF212230.1|CF212230
EST:     TGGTTGATGGAAAGCTTCCTCTAAATCATGAGATTCTTTACCATCTCCAG                         GATGTTTTCAAC
genomic: TGGTTGATGGAAAGCTTCCTCTAAATCATGAGATTCTTTACCATCTCCAGgtagagtttg ... aaaattgcagGATGTTTTCAAC
EST: gi|110396200|gb|EC961881.1|EC961881
EST:     TGGTTGATGGAAAGCTTCCTCTAAATCATGAGATTCTTTACCATCTCCAG                         GATGTTTTCAACTTGCTTCCAAATCTCAATGTTGCTGAGTTAATCAAGGCA
genomic: TGGTTGATGGAAAGCTTCCTCTAAATCATGAGATTCTTTACCATCTCCAGgtagagtttg ... aaaattgcagGATGTTTTCAACTTGCTTCCAAATCTCAATGTTGCTGAGTTAATCAAGGCA
EST: gi|110401013|gb|EC967604.1|EC967604
EST:     TGGTTGATGGAAAGCTTCCTCTAAATCATGAGATTCTTTACCATCTCCAG                         GATGTTTTNCA-CTTGCTTCCAAATCTCAATGTTGCTGAGTTAATCAAGGC
genomic: TGGTTGATGGAAAGCTTCCTCTAAATCATGAGATTCTTTACCATCTCCAGgtagagtttg ... aaaattgcagGATGTTTT-CAACTTGCTTCCAAATCTCAATGTTGCTGAGTTAATCAAGGC
EST: gi|33407874|gb|CF213501.1|CF213501
EST:     TGGTTGATGGAAAGCTTCCTCTAAATCATGAGATTCTTTACCATCTCCAG                         GATGTTTTCAACTTGCTTCCAAATCTCAATGTTGCTGAGTTAATCAAGGCA
genomic: TGGTTGATGGAAAGCTTCCTCTAAATCATGAGATTCTTTACCATCTCCAGgtagagtttg ... aaaattgcagGATGTTTTCAACTTGCTTCCAAATCTCAATGTTGCTGAGTTAATCAAGGCA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GAAGGGTTTGGATGCACGACTGAGAGAAATACGTGGTTATCTTGATCTTGTGGTTGATGGAAAGCTTCCTCTAAATCATGAGATTCTTTACCATCTCCAGgtagagtttgcttcatttatttgtacatttgcgtcctactgatgtcattagaatcctattttggagctaccttgatcacatatcttgctttctctgtatt

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