rs52540857 SNP Detail

Summary

• ID
  rs52540857
• Variation Type
  SNP
• Alleles
  C/T

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

Genome Location and Flanking Sequence

• Location
  Chr4:139481959 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                        CTCTC TTCCTCCCTT CCCCCCTCCC
  Y
  TCCCAACCCT CAGCATCTCC CCCAC                                      
  
  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	129P2/OlaHsd	129S1/SvImJ	AKR/J	BALB/cByJ	BALB/cJ	BTBR T<+> Itpr3/J	BUB/BnJ	C57BL/6J	C57BL/6NJ	C57BL/10J	C57BL/10SnJ	C58/J	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/2J	FVB/NJ	JF1/MsJ	KK/HlJ	LG/J	LP/J	MA/MyJ	MOLF/EiJ	NOD/ShiLtJ	NON/ShiLtJ	NZO/HlLtJ	PL/J	PWK/PhJ	QSi5/Ianm	RIIIS/J	SEA/GnJ	SPRET/EiJ	ST/bJ
ss640620277	FVB_NJ_4_139310563	EVA_MGPV3	EVA_MGPV3	f	SNP	C	C	T	T	T	C	T	C	C	T	T	C	C	T	T	C	T	T	C	T	T	C	T	C	C	C	C	T	T	C	C	T	C	T
SNP Consensus Information
SNP					Consensus Type	129P2/OlaHsd	129S1/SvImJ	AKR/J	BALB/cByJ	BALB/cJ	BTBR T<+> Itpr3/J	BUB/BnJ	C57BL/6J	C57BL/6NJ	C57BL/10J	C57BL/10SnJ	C58/J	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/2J	FVB/NJ	JF1/MsJ	KK/HlJ	LG/J	LP/J	MA/MyJ	MOLF/EiJ	NOD/ShiLtJ	NON/ShiLtJ	NZO/HlLtJ	PL/J	PWK/PhJ	QSi5/Ianm	RIIIS/J	SEA/GnJ	SPRET/EiJ	ST/bJ
rs52540857					SNP	C	C	T	T	T	C	T	C	C	T	T	C	C	T	T	C	T	T	C	T	T	C	T	C	C	C	C	T	T	C	C	T	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
ss640620277	FVB_NJ_4_139310563	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr4:139481959 () rs orientation: forward

Symbol	Name	Function Class
Pax7	paired box 7	within coordinates
Rr86808	regulatory region 86808	1159 bp distal
Rr92760	regulatory region 92760	42 bp proximal
Rr92761	regulatory region 92761	842 bp proximal
Rr103267	regulatory region 103267	559 bp distal
Rr103268	regulatory region 103268	159 bp distal
Rr103269	regulatory region 103269	1643 bp proximal