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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttcatattcattactgttgtcctattcatttttttaaacatgttttctcatgatgatttatctttcagtaaatcatgcacatatcaattcctcctccattactgttgttttattttctttttaaacttattataataattcaatggcctgtacttattcattccttattcatgcagGTTGACAGTTCCCTGAAGGACCTGTTAGGTGATAGCATGCCTGTCATAAACCTGAATTTTCCTCCTAGTAGTGGTGGGTCTAAAAGCCCTCAGATTATAG

Basic information

species Vitis vinifera
transcript Vv17s0000g09280.t01
intron # 6
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|30135185|gb|CB920523.1|CB920523
EST:     CTGCACCATCTGGCCAAACATTTGGGCAACGAGTTTGGGTTCTCATTCAG                         GTTGACAGTTCCCTGAAGGACCTGTTAGGTGATAGCATGCCTGTCATAAAC
genomic: CTGCACCATCTGGCCAAACATTTGGGCAACGAGTTTGGGTTCTCATTCAGgttcatattc ... attcatgcagGTTGACAGTTCCCTGAAGGACCTGTTAGGTGATAGCATGCCTGTCATAAAC
EST: gi|110428225|gb|EC994690.1|EC994690
EST:     CTGCACCATCTGGCCAAACATTTGGGCAACGAGTTTGGGTTCTCATTCAG                         GTTGACAGTTCCCTGAAGGACCTGTTAGGTGATAGCATGCCTGTCATAAAC
genomic: CTGCACCATCTGGCCAAACATTTGGGCAACGAGTTTGGGTTCTCATTCAGgttcatattc ... attcatgcagGTTGACAGTTCCCTGAAGGACCTGTTAGGTGATAGCATGCCTGTCATAAAC
EST: gi|110727900|gb|EE105187.1|EE105187
EST:     CTGCACCATCTGGCCCAACATTTGGGCAACCAGTTTGGGTTCCCATTCCG                         GTTGACAGTTCCCTGAAGGACC
genomic: CTGCACCATCTGGCCAAACATTTGGGCAACGAGTTTGGGTTCTCATTCAGgttcatattc ... attcatgcagGTTGACAGTTCCCTGAAGGACC
EST: gi|30125556|gb|CB910895.1|CB910895
EST:     CTGCACCATCTGGCCAAACATTTGGGCAACGAGTTTGGGTTCTCATTCAG                         GTTGACAGTTCCCTGAAGGACCTGTTAGGTGATAGCATGCCTGTCATAAAC
genomic: CTGCACCATCTGGCCAAACATTTGGGCAACGAGTTTGGGTTCTCATTCAGgttcatattc ... attcatgcagGTTGACAGTTCCCTGAAGGACCTGTTAGGTGATAGCATGCCTGTCATAAAC
EST: gi|110730520|gb|EE107692.1|EE107692
EST:     CTGCACCATCTGGCCAAACATTTGGGCAACGAGTTTGGGTTCTCATTCAG                         GTTGACAGTTCCCTGAAGGACCTGTTAGGTGATACCATGCCTGTCATAAAC
genomic: CTGCACCATCTGGCCAAACATTTGGGCAACGAGTTTGGGTTCTCATTCAGgttcatattc ... attcatgcagGTTGACAGTTCCCTGAAGGACCTGTTAGGTGATAGCATGCCTGTCATAAAC
EST: gi|110699168|gb|EE075929.1|EE075929
EST:     CTGCACCATCTGGCCAAACATTTGGGCAACGAGTTTGGGTTCTCATTCAG                         GTTGACAGTTCCCTGAAGGACCTGTTANGTGATACCATGCCTGTCATNAAC
genomic: CTGCACCATCTGGCCAAACATTTGGGCAACGAGTTTGGGTTCTCATTCAGgttcatattc ... attcatgcagGTTGACAGTTCCCTGAAGGACCTGTTAGGTGATAGCATGCCTGTCATAAAC
EST: gi|351016642|gb|FQ424069.1|FQ424069
EST:     CTGCACCATCTGGCCAAACATTTGGGCAACGAGTTTGGGTTCTCATTCAG                         GTTGACAGTTCTCTGAAGGACCTGTTAGGTGATAGCATGCCTGTCATAAAC
genomic: CTGCACCATCTGGCCAAACATTTGGGCAACGAGTTTGGGTTCTCATTCAGgttcatattc ... attcatgcagGTTGACAGTTCCCTGAAGGACCTGTTAGGTGATAGCATGCCTGTCATAAAC
EST: gi|30322657|gb|CD005919.1|CD005919
EST:     CTGCACCATCTGGCCAAACATTTGGGCAACGAGTTTGGGTTCTCATTCAG                         GTTGACAGTTCCCTGAAGGACCTGTTAGGTGATAGCATGCCTGTCATAAAC
genomic: CTGCACCATCTGGCCAAACATTTGGGCAACGAGTTTGGGTTCTCATTCAGgttcatattc ... attcatgcagGTTGACAGTTCCCTGAAGGACCTGTTAGGTGATAGCATGCCTGTCATAAAC
EST: gi|349823893|gb|FQ415304.1|FQ415304
EST:     CTGCACCATCTGGCCAAACATTTGGGCAACGAGTTTGGGTTCTCATTCAG                         GTTGACAGTTCCCTGAAGGACCTGTTAGGTGATAGCATGCCTGTCATAAAC
genomic: CTGCACCATCTGGCCAAACATTTGGGCAACGAGTTTGGGTTCTCATTCAGgttcatattc ... attcatgcagGTTGACAGTTCCCTGAAGGACCTGTTAGGTGATAGCATGCCTGTCATAAAC
EST: gi|30325647|gb|CD008909.1|CD008909
EST:     CTGCACCATCTGGCCAAACATTTGGGCAACGAGTTTGGGTTCTCATTCAG                         GTTGACAGTTCCCTGAAGGACCTGTTAGGTGATAGCATGCCTGTCATAAAC
genomic: CTGCACCATCTGGCCAAACATTTGGGCAACGAGTTTGGGTTCTCATTCAGgttcatattc ... attcatgcagGTTGACAGTTCCCTGAAGGACCTGTTAGGTGATAGCATGCCTGTCATAAAC
EST: gi|30127731|gb|CB913070.1|CB913070
EST:     CTGCACCATCTGGCCAAACATTTGGGCAACGAGTTTGGGTTCTCATTCAG                         GTTGACAGTTCCCTGAAGGACCTGTTAGGTGATAGCATGCCTGTCATAAAC
genomic: CTGCACCATCTGGCCAAACATTTGGGCAACGAGTTTGGGTTCTCATTCAGgttcatattc ... attcatgcagGTTGACAGTTCCCTGAAGGACCTGTTAGGTGATAGCATGCCTGTCATAAAC
EST: gi|30306281|gb|CB983075.1|CB983075
EST:     CTGCACCATCTGGCCAAACATTTGGGCAACGAGTTTGGGTTCTCATTCAG                         GTTGACAGTTCCCTGAAGGACCTGTTAGGTGATAGCATGCCTGTCATAAAC
genomic: CTGCACCATCTGGCCAAACATTTGGGCAACGAGTTTGGGTTCTCATTCAGgttcatattc ... attcatgcagGTTGACAGTTCCCTGAAGGACCTGTTAGGTGATAGCATGCCTGTCATAAAC
EST: gi|32271005|gb|CD720164.1|CD720164
EST:     CTGCACCATCTGGCCAAACATTTGGGCAACGAGTTTGGGTTCTCATTCAG                         GTTGACAGTTCCCTGAAGGACCTGTTAGGTGATAGCATGCCTGTCATAAAC
genomic: CTGCACCATCTGGCCAAACATTTGGGCAACGAGTTTGGGTTCTCATTCAGgttcatattc ... attcatgcagGTTGACAGTTCCCTGAAGGACCTGTTAGGTGATAGCATGCCTGTCATAAAC
EST: gi|110424289|gb|EC990645.1|EC990645
EST:     CTGCACCATCTGGCCAAACATTTGGGCAACGAGTTTGGGTTCTCATTCAG                         GTTGACAGTTCCCTGAAGGACCTGTTAGGTGATACCATGCCTGTCATAAAC
genomic: CTGCACCATCTGGCCAAACATTTGGGCAACGAGTTTGGGTTCTCATTCAGgttcatattc ... attcatgcagGTTGACAGTTCCCTGAAGGACCTGTTAGGTGATAGCATGCCTGTCATAAAC
EST: gi|30327006|gb|CD010268.1|CD010268
EST:     CTGCACCATCTGGCCAAACATTTGGGCAACGAGTTTGGGTTCTCATTCAG                         GTTGACAGTTCCCTGAAGGACCTGTTAGGTGATAGCATGCCTGTCATAAAC
genomic: CTGCACCATCTGGCCAAACATTTGGGCAACGAGTTTGGGTTCTCATTCAGgttcatattc ... attcatgcagGTTGACAGTTCCCTGAAGGACCTGTTAGGTGATAGCATGCCTGTCATAAAC
EST: gi|30327640|gb|CD010902.1|CD010902
EST:     CTGCACCATCTGGCCAAACATTTGGGCAACGAGTTTGGGTTCTCATTCAG                         GTTGACAGTTCCCTGAAGGACCTGTTAGGTGATAGCATGCCTGTCATAAAC
genomic: CTGCACCATCTGGCCAAACATTTGGGCAACGAGTTTGGGTTCTCATTCAGgttcatattc ... attcatgcagGTTGACAGTTCCCTGAAGGACCTGTTAGGTGATAGCATGCCTGTCATAAAC
EST: gi|30324895|gb|CD008157.1|CD008157
EST:     CTGCACCATCTGGCCAAACATTTGGGCAACGAGTTTGGGTTCTCATTCAG                         GTTGACAGTTCCCTGAAGGACCTGTTAGGTGATAGCATGCCTGTCATAAAC
genomic: CTGCACCATCTGGCCAAACATTTGGGCAACGAGTTTGGGTTCTCATTCAGgttcatattc ... attcatgcagGTTGACAGTTCCCTGAAGGACCTGTTAGGTGATAGCATGCCTGTCATAAAC
EST: gi|110719040|gb|EE096561.1|EE096561
EST:     CTGCACCATCTGGCCAAACATTTGGGCAACGAGTTTGGGTTCTCATTCAG                         GTTGACAGTTCCCTGAAGGACCTGTTAGGTGATACCATGCCTGTCATAAAC
genomic: CTGCACCATCTGGCCAAACATTTGGGCAACGAGTTTGGGTTCTCATTCAGgttcatattc ... attcatgcagGTTGACAGTTCCCTGAAGGACCTGTTAGGTGATAGCATGCCTGTCATAAAC
EST: gi|110726600|gb|EE102523.1|EE102523
EST:     CTGCACCATCTGGCCAAACATTTGGGCAACGAGTTTGGGTTCTCATTCAG                         GTTGACAGTTCCCTGAAGGACCTGTTAGGTGATAGCATGCCTGTCATAAAC
genomic: CTGCACCATCTGGCCAAACATTTGGGCAACGAGTTTGGGTTCTCATTCAGgttcatattc ... attcatgcagGTTGACAGTTCCCTGAAGGACCTGTTAGGTGATAGCATGCCTGTCATAAAC
EST: gi|30306027|gb|CB982821.1|CB982821
EST:     CTGCACCATCTGGCCAAACATTTGGGCAACGAGTTTGGGTTCTCATTCAG                         GTTGACAGTTCCCTGAAGGACCTGTTAGGTGATAGCATGCCTGTCATAAAC
genomic: CTGCACCATCTGGCCAAACATTTGGGCAACGAGTTTGGGTTCTCATTCAGgttcatattc ... attcatgcagGTTGACAGTTCCCTGAAGGACCTGTTAGGTGATAGCATGCCTGTCATAAAC
EST: gi|351037577|gb|FQ462560.1|FQ462560
EST:     CTGCACCATCTGGCCAAACATTTGGGCAACGAGTTTGGGTTCTCATTCAG                         GTTGACAGTTCCCTGAAGGACCTGTTAGGTGATAGCATGCCTGTCATAAAC
genomic: CTGCACCATCTGGCCAAACATTTGGGCAACGAGTTTGGGTTCTCATTCAGgttcatattc ... attcatgcagGTTGACAGTTCCCTGAAGGACCTGTTAGGTGATAGCATGCCTGTCATAAAC
EST: gi|110690229|gb|EE067146.1|EE067146
EST:     CTGCACCATCTGGCCAAACATTTGGGCAACGAGTTTGGGTTCTCATTCAG                         GTTGACAGTTCCCTGAAGGACCTGTTAGGTGATAGCATGCCTGTCATAAAC
genomic: CTGCACCATCTGGCCAAACATTTGGGCAACGAGTTTGGGTTCTCATTCAGgttcatattc ... attcatgcagGTTGACAGTTCCCTGAAGGACCTGTTAGGTGATAGCATGCCTGTCATAAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taaacttattataataattcaatggcctgtacttattcattccttattcatgcagGTTGACAGTTCCCTGAAGGACCTGTTAGGTGATAGCATGCCTGTCATAAACCTGAATTTTCCTCCTAGTAGTGGTGGGTCTAAAAGCCCTCAGATTATAG
                                   ttcattccttattc  CT-rich tract
     ttattataataattca  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttcatattcattactgttgtcctattcatttttttaaacatgttttctcatgatgatttatctttcagtaaatcatgcacatatcaattcctcctccattactgttgttttattttctttttaaacttattataataattcaatggcctgtacttattcattccttattcatgcagGTTGACAGTTCCCTGAAGGACCTGTTAGGTGATAGCATGCCTGTCATAAACCTGAATTTTCCTCCTAGTAGTGGTGGGTCTAAAAGCCCTCAGATTATAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG