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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ggaaactgcaaatcttgtagtatcacttttcatttatttcattcattatcttatttatttatttatttgctaatacatgtttgtaactgtcaactatcagCCGCCATCCTACAGTGAAATGGGCCCAGAGGTCTGATACCATCTATATCACAATTGACTTGCCTGATGCTAAGGATGTGAATCTTAAATTAGAGCCTGAG

Basic information

species Vitis vinifera
transcript Vv18s0001g01940.t01
intron # 2
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|110429290|gb|EC995781.1|EC995781
EST:     GCATTTTGCTTTGCTTTGCTTTACTGCCAAAATCTTTTCTCTAAGATGAG                         CCGCCATCCTACAGTGAAATGGGCCCAGAGGTCTGATACCATCTATATCAC
genomic: GCATTTTGCTTTGATTTGCTTTACTGCAAAAATCTTTTCTCTAAGATGAGgtatttgttt ... caactatcagCCGCCATCCTACAGTGAAATGGGCCCAGAGGTCTGATACCATCTATATCAC
EST: gi|351013532|gb|FQ425563.1|FQ425563
EST:     GCATTTTGCTTTGATTTGCTTTACTGCAAAAATCTTTTCTCTAAGATGAG                         CCGCCATCCTACAGTGAAATGGGCCCAGAGGTCTGATACCATCTATATCAC
genomic: GCATTTTGCTTTGATTTGCTTTACTGCAAAAATCTTTTCTCTAAGATGAGgtatttgttt ... caactatcagCCGCCATCCTACAGTGAAATGGGCCCAGAGGTCTGATACCATCTATATCAC
EST: gi|349825032|gb|FQ415579.1|FQ415579
EST:     GCATTTTGCTTTGATTTGCTTTACTGCAAAAATCTTTTCTCTAAGATGAG                         CCGCCATCCTACAGTGAAATGGGCCCAGAGGTCTGATACCATTTATATCAC
genomic: GCATTTTGCTTTGATTTGCTTTACTGCAAAAATCTTTTCTCTAAGATGAGgtatttgttt ... caactatcagCCGCCATCCTACAGTGAAATGGGCCCAGAGGTCTGATACCATCTATATCAC
EST: gi|351025087|gb|FQ433504.1|FQ433504
EST:     GCATTTTGCTTTGATTTGCTTTACTGCAAAAATCTTTTCTCTAAGATGAG                         CCGCCATCCTACAGTGAAATGGGCCCAGAGGTCTGATACCATCTATATCAC
genomic: GCATTTTGCTTTGATTTGCTTTACTGCAAAAATCTTTTCTCTAAGATGAGgtatttgttt ... caactatcagCCGCCATCCTACAGTGAAATGGGCCCAGAGGTCTGATACCATCTATATCAC
EST: gi|349812059|gb|FQ410856.1|FQ410856
EST:     GCATTTTGCTTTGATTTGCTTTACTGCAAAAATCTTTTCTCTAAGATGAG                         CCCCCCTCCTACAGTGAAATGGGCCCCGAGGTCTGATACCATCTATATCAC
genomic: GCATTTTGCTTTGATTTGCTTTACTGCAAAAATCTTTTCTCTAAGATGAGgtatttgttt ... caactatcagCCGCCATCCTACAGTGAAATGGGCCCAGAGGTCTGATACCATCTATATCAC
EST: gi|110690904|gb|EE068398.1|EE068398
EST:     GCATTTTGCTTTGATTTGCTTTACTGCAAAAATCTTTTCTCTAAGATGAG                         CCGCCATCCTACAGTGAAATGGGCCCAGAGGTCTGATACCATCTATATCAC
genomic: GCATTTTGCTTTGATTTGCTTTACTGCAAAAATCTTTTCTCTAAGATGAGgtatttgttt ... caactatcagCCGCCATCCTACAGTGAAATGGGCCCAGAGGTCTGATACCATCTATATCAC
EST: gi|351049075|gb|FQ431619.1|FQ431619
EST:     GCATTTTGCTTTGCTTTGCTTTACTGCAAAAATCCTTTCTCTAAGATGAG                         CCGCCATCCTACAGTGAAATGGGCCCAGAGGTCTGATACCATCTATGTCAC
genomic: GCATTTTGCTTTGATTTGCTTTACTGCAAAAATCTTTTCTCTAAGATGAGgtatttgttt ... caactatcagCCGCCATCCTACAGTGAAATGGGCCCAGAGGTCTGATACCATCTATATCAC
EST: gi|351014311|gb|FQ437313.1|FQ437313
EST:     GCATTTTGCTTTGATTTGCTTTACTGCAAAAATCTTTTCTCTAAGATGAG                         CCGCCATCCTACAGTGAAATGGGCCCAGAGGTCTGATACCATTTATATCAC
genomic: GCATTTTGCTTTGATTTGCTTTACTGCAAAAATCTTTTCTCTAAGATGAGgtatttgttt ... caactatcagCCGCCATCCTACAGTGAAATGGGCCCAGAGGTCTGATACCATCTATATCAC
EST: gi|110729569|gb|EE105653.1|EE105653
EST:     GCATTTTGCTTTGCTTTGCTTTACTGCCAAAATCTTTTCTCTAAGATGAG                         CCGCCATCCTACAGTGAAATGGGCCCAGAGGTCTGATACCATCTATATCAC
genomic: GCATTTTGCTTTGATTTGCTTTACTGCAAAAATCTTTTCTCTAAGATGAGgtatttgttt ... caactatcagCCGCCATCCTACAGTGAAATGGGCCCAGAGGTCTGATACCATCTATATCAC
EST: gi|351049132|gb|FQ449854.1|FQ449854
EST:     GCATTTTGCTTTGATTTGCTTTACTGCAAAAATCTTTTCTCTAAGATGAG                         CCGCCATCCTACAGTGAAATGGGCCCAGAGGTCTGATACCATCTATATCAC
genomic: GCATTTTGCTTTGATTTGCTTTACTGCAAAAATCTTTTCTCTAAGATGAGgtatttgttt ... caactatcagCCGCCATCCTACAGTGAAATGGGCCCAGAGGTCTGATACCATCTATATCAC
EST: gi|351012422|gb|FQ427023.1|FQ427023
EST:     GCATTTTGCTTTGATTTGCTTTACTGCAAAAATCTTTTCTCTAAGATGAG                         CCGCCATCCTACAGTGAAATGGGCCCAGAGGTCTGATACCATCTATATCAC
genomic: GCATTTTGCTTTGATTTGCTTTACTGCAAAAATCTTTTCTCTAAGATGAGgtatttgttt ... caactatcagCCGCCATCCTACAGTGAAATGGGCCCAGAGGTCTGATACCATCTATATCAC
EST: gi|33403447|gb|CF209074.1|CF209074
EST:     GCATTTTGCTTTGATTTGCTTTACTGCAAAAATCTTTTCTCTAAGATGAG                         CCGCCATCCTACAGTGAAATGGGCCCAGAGGTCTGATACCATCTATATCAC
genomic: GCATTTTGCTTTGATTTGCTTTACTGCAAAAATCTTTTCTCTAAGATGAGgtatttgttt ... caactatcagCCGCCATCCTACAGTGAAATGGGCCCAGAGGTCTGATACCATCTATATCAC
EST: gi|351046326|gb|FQ448631.1|FQ448631
EST:     GCATTTTGCTTTGATTTGCTTTACTGCAAAAATCTTTTCTCTAAGATGAG                         CCGCCATCCTACAGTGAAATGGGCCCAGAGGTCTGATACCATCTATATCAC
genomic: GCATTTTGCTTTGATTTGCTTTACTGCAAAAATCTTTTCTCTAAGATGAGgtatttgttt ... caactatcagCCGCCATCCTACAGTGAAATGGGCCCAGAGGTCTGATACCATCTATATCAC
EST: gi|349825031|gb|FQ415578.1|FQ415578
EST:     GCATTTTGCTTTGATTTGCTTTACTGCAAAAATCTTTTCTCTAAGATGAG                         CCGCCATCCTACAGTGAAATGGGCCCAGAGGTCTGATACCATTTATATCAC
genomic: GCATTTTGCTTTGATTTGCTTTACTGCAAAAATCTTTTCTCTAAGATGAGgtatttgttt ... caactatcagCCGCCATCCTACAGTGAAATGGGCCCAGAGGTCTGATACCATCTATATCAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttatcttatttatttatttatttgctaatacatgtttgtaactgtcaactatcagCCGCCATCCTACAGTGAAATGGGCCCAGAGGTCTGATACCATCTATATCACAATTGACTTGCCTGATGCTAAGGATGTGAATCTTAAATTAGAGCCTGAG
                                   ttgtaac  putative branch site (score: 2)
     ttatttatttatttat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ggaaactgcaaatcttgtagtatcacttttcatttatttcattcattatcttatttatttatttatttgctaatacatgtttgtaactgtcaactatcagCCGCCATCCTACAGTGAAATGGGCCCAGAGGTCTGATACCATCTATATCACAATTGACTTGCCTGATGCTAAGGATGTGAATCTTAAATTAGAGCCTGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGATG
- - -ctgcaaa
- - - - - - - - - - - - - - - - - - - -cattcat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - acatgtt