rs52547459 SNP Detail

Summary

• ID
  rs52547459
• Variation Type
  SNP
• Alleles
  C

• Created in dbSNP Build
  128
• Last Updated in dbSNP Build
  138
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr3:28318527 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                        GAAAG AGAAGCTTAA CCGCTTCTCC
  C
  CACCACACCG GAACTCCCTG GAGAG                                      
  
  C = C
  

  
  Note: Sequence in lower case indicates low-complexity or repetitive sequence

  ---

SNP Assays
and
SNP Consensus

Strain alleles of submitted assays, and consensus values for this SNP

Assay ID	Submitter SNP ID	Submitter Handle	Population	ss orientation	Variation Type	A/J	DBA/2J
ss134712139	ENSMUSSNP2686871	ENSEMBL	ENSEMBL_Sanger	f	SNP	C	C
SNP Consensus Information
SNP					Consensus Type	A/J	DBA/2J
rs52547459					SNP	C	C

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:28318527 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Gm54170	predicted gene, 54170			within coordinates
Gm56802	predicted gene, 56802			within coordinates
Rr574555	regulatory region 574555			725 bp distal
Rr574556	regulatory region 574556			174 bp distal
Rr574557	regulatory region 574557			within coordinates
Rr574558	regulatory region 574558			850 bp proximal
Tnik	TRAF2 and NCK interacting kinase			Intron
				Noncoding-Transcript-Variant
Tssr28643	transcription start site region 28643			1164 bp downstream
Tssr28644	transcription start site region 28644			1045 bp downstream
Tssr28645	transcription start site region 28645			992 bp downstream
Tssr28646	transcription start site region 28646			965 bp downstream
Tssr28647	transcription start site region 28647			950 bp downstream
Tssr28648	transcription start site region 28648			941 bp downstream
Tssr28649	transcription start site region 28649			801 bp downstream
Tssr32865	transcription start site region 32865			129 bp upstream
Tssr32866	transcription start site region 32866			852 bp downstream