rs49574188 SNP Detail

Summary

• ID
  rs49574188
• Variation Type
  SNP
• Alleles
  T

• Created in dbSNP Build
  127
• Last Updated in dbSNP Build
  138
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr2:148715720 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                        ATTAA GAGGTGCACT GGCCCTCAAG
  T
  TCCAAGGCAG CTGGGAAGTG GAGTT                                      
  
  T = 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	A/J	DBA/2J	LG/J	SM/J
ss147934878	ENSMUSSNP5887552	ENSEMBL	ENSEMBL_Sanger	f	SNP	T	T
ss320557215	CHEV_2_148699536	CHEVERUD	SCREENING_POP	f	SNP			T	T
SNP Consensus Information
SNP					Consensus Type	A/J	DBA/2J	LG/J	SM/J
rs49574188					SNP	T	T	T	T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr2:148715720 () 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			332 bp upstream
Rr566976	regulatory region 566976			1732 bp proximal
Rr566977	regulatory region 566977			1766 bp proximal
Tssr20680	transcription start site region 20680			1806 bp downstream
Tssr20681	transcription start site region 20681			909 bp downstream
Tssr20682	transcription start site region 20682			1348 bp upstream
Tssr20683	transcription start site region 20683			1424 bp upstream
Tssr26682	transcription start site region 26682			1840 bp upstream
Tssr26683	transcription start site region 26683			1790 bp upstream
Tssr26684	transcription start site region 26684			1753 bp upstream
Tssr26685	transcription start site region 26685			894 bp upstream
Tssr26686	transcription start site region 26686			861 bp upstream
Tssr26687	transcription start site region 26687			730 bp upstream
Tssr26688	transcription start site region 26688			1621 bp downstream
Tssr26689	transcription start site region 26689			1652 bp downstream
Tssr26690	transcription start site region 26690			1804 bp downstream
Tssr26691	transcription start site region 26691			1823 bp downstream