rs27261916 SNP Detail

Summary

• ID
  rs27261916
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  125
• Last Updated in dbSNP Build
  138
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr2:148716068 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                        CACAA GAAGAGGGAA GCAAGGCTTC
  Y
  TAGAACAACT AGACAGCACC TTCTG                                      
  
  Y = C/T
  

  
  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	129S1/SvImJ	129X1/SvJ	A/J	C57BL/6J	CAST/EiJ	FVB/NJ	LG/J	MOLF/EiJ	SM/J	WSB/EiJ
ss37489836	NES08920662	PERLEGEN	MM_PANEL2	f	SNP					C	C		C		T
ss45342283	mCV22550530	ABI	CRAMUS_MOUSE	f	SNP	T	T	C	T
ss147934888	ENSMUSSNP4408089	ENSEMBL	ENSEMBL_Sanger	f	SNP		T	C
ss320557218	CHEV_2_148699884	CHEVERUD	SCREENING_POP	f	SNP							T		C
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	129X1/SvJ	A/J	C57BL/6J	CAST/EiJ	FVB/NJ	LG/J	MOLF/EiJ	SM/J	WSB/EiJ
rs27261916					SNP	T	T	C	T	C	C	T	C	C	T

Additional submitted assays for this SNP, where the strain of origin for observed alleles is not specified by the submitter

Assay ID	Submitter SNP ID	Submitter Handle	Population	ss orientation	Variation Type	Alleles
ss37489836	NES08920662	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr2:148716068 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cst3	cystatin C			Intron
				Noncoding-Transcript-Variant
Rr374041	regulatory region 374041			within coordinates
Rr566976	regulatory region 566976			1384 bp proximal
Rr566977	regulatory region 566977			1418 bp proximal
Tssr20681	transcription start site region 20681			1257 bp downstream
Tssr20682	transcription start site region 20682			1000 bp upstream
Tssr20683	transcription start site region 20683			1076 bp upstream
Tssr26685	transcription start site region 26685			1242 bp upstream
Tssr26686	transcription start site region 26686			1209 bp upstream
Tssr26687	transcription start site region 26687			1078 bp upstream
Tssr26688	transcription start site region 26688			1273 bp downstream
Tssr26689	transcription start site region 26689			1304 bp downstream
Tssr26690	transcription start site region 26690			1456 bp downstream
Tssr26691	transcription start site region 26691			1475 bp downstream