rs258552079 SNP Detail

Summary

• ID
  rs258552079
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  137
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr3:95408161 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              AGGATTAGTG TGTGTGTGTG
  TGTGTGTGTG TGTGTGTGTG TTATTTTTCT GGTAGAAAAT TTATTTTTAA AGCTCTTAAA
  AGGTTAAAAC TTTCCTGATA ACCTGTCTGC TGCCATTTGA ACATCCAAAG CCAACCTGTG
  AATTTCTGCT AGTGGAAATC TCCCCTAATT ATTCCTTCCG CCAGGATGTG GGTGTTCAAG
  Y
  TTCTGCTGCT ACCCATGGTG AGCTTTGCTC TGTCTCCGGA GGAAATGCTG GACACCCAGT
  GGGAGCTATG GAAGAAGACT CACCAGAAGC AGTATAACAG CAAGGTGCCC AAGGAAGCAG
  TCCCCATTCT CTAACTCTGC AGCTAGCTTT TCCTTCTGTG CATCAGTCCT TCTGTCTGCT
  TCCCACATGT ATTAGCTGGA                                            
  
  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	129S5/SvEvBrd	A/J	AKR/J	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cByJ	BALB/cJ	BTBR T<+> Itpr3/J	BUB/BnJ	C3H/HeH	C3H/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10J	C57BL/10SnJ	C57BR/cdJ	C57L/J	C58/J	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/1J	DBA/2J	FVB/NJ	I/LnJ	JF1/MsJ	KK/HlJ	LEWES/EiJ	LG/J	LP/J	MA/MyJ	MOLF/EiJ	NOD/ShiLtJ	NON/ShiLtJ	NZB/BlNJ	NZO/HlLtJ	NZW/LacJ	PL/J	PWK/PhJ	QSi3/Ianm	QSi5/Ianm	RF/J	RIIIS/J	SEA/GnJ	SJL/J	SM/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
ss358902218	MGP_WTSI_3_95304772	EVA_MGPV3	EVA_MGPV3	f	SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	C	T	T	T	T
SNP Consensus Information
SNP					Consensus Type	129P2/OlaHsd	129S1/SvImJ	129S5/SvEvBrd	A/J	AKR/J	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cByJ	BALB/cJ	BTBR T<+> Itpr3/J	BUB/BnJ	C3H/HeH	C3H/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10J	C57BL/10SnJ	C57BR/cdJ	C57L/J	C58/J	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/1J	DBA/2J	FVB/NJ	I/LnJ	JF1/MsJ	KK/HlJ	LEWES/EiJ	LG/J	LP/J	MA/MyJ	MOLF/EiJ	NOD/ShiLtJ	NON/ShiLtJ	NZB/BlNJ	NZO/HlLtJ	NZW/LacJ	PL/J	PWK/PhJ	QSi3/Ianm	QSi5/Ianm	RF/J	RIIIS/J	SEA/GnJ	SJL/J	SM/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
rs258552079					SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	C	T	T	T	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
ss358902218	MGP_WTSI_3_95304772	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:95408161 () rs orientation: forward

Symbol	Name	Function Class
Ctsk	cathepsin K	Coding-NonSynonymous
Rr375407	regulatory region 375407	986 bp upstream
Rr580953	regulatory region 580953	1584 bp distal
Rr580954	regulatory region 580954	470 bp distal
Tssr30555	transcription start site region 30555	1630 bp downstream
Tssr30556	transcription start site region 30556	1621 bp downstream
Tssr30557	transcription start site region 30557	1585 bp downstream
Tssr30558	transcription start site region 30558	1561 bp downstream
Tssr30559	transcription start site region 30559	1039 bp downstream
Tssr30560	transcription start site region 30560	982 bp downstream
Tssr30561	transcription start site region 30561	954 bp downstream
Tssr30562	transcription start site region 30562	1673 bp upstream