rs52358400 SNP Detail

Summary

• ID
  rs52358400
• 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
  Chr6:136806403 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                        GTCTG TCTCGAAAAA AAACCAAAAA
  C
  CAAAACAAAA CAACAAAAAA CCAAA                                      
  
  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
ss133848601	ENSMUSSNP5097751	ENSEMBL	ENSEMBL_Sanger	f	SNP	C	C
SNP Consensus Information
SNP					Consensus Type	A/J	DBA/2J
rs52358400					SNP	C	C

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr6:136806403 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
BC049715	cDNA sequence BC049715			Intron
				mRNA-UTR
Cpgi18110	CpG island 18110			982 bp distal
Rr380176	regulatory region 380176			38 bp downstream
Rr640072	regulatory region 640072			1183 bp distal
Rr640073	regulatory region 640073			552 bp distal
Rr640074	regulatory region 640074			263 bp distal
Smco3	single-pass membrane protein with coiled-coil domains 3			526 bp downstream
Tssr2044	transcription start site region 2044			925 bp downstream
Tssr59337	transcription start site region 59337			1645 bp downstream
Tssr59338	transcription start site region 59338			1607 bp downstream
Tssr59339	transcription start site region 59339			1594 bp downstream
Tssr59340	transcription start site region 59340			1566 bp downstream
Tssr59341	transcription start site region 59341			949 bp downstream
Tssr59342	transcription start site region 59342			580 bp downstream
Tssr63836	transcription start site region 63836			1661 bp upstream
Tssr63837	transcription start site region 63837			1644 bp upstream
Tssr63838	transcription start site region 63838			1636 bp upstream
Tssr63839	transcription start site region 63839			1580 bp upstream
Tssr63840	transcription start site region 63840			1343 bp upstream
Tssr63841	transcription start site region 63841			1226 bp upstream
Tssr63842	transcription start site region 63842			1208 bp upstream
Wbp11	WW domain binding protein 11			1189 bp upstream