rs258594460 SNP Detail

Summary

• ID
  rs258594460
• Variation Type
  SNP
• Alleles
  C/G

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

Genome Location and Flanking Sequence

• Location
  ChrX:7437940 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GTGACTCTGA GCAAGCTCGA
  GCACCTCTCC GAGCCCCCCA CCCCACCCCA TTTCCCATGA ACTAGGACTC AATATAGTGC
  CTACAGTCAA CAGCACATTC AGCTGACCTC AAGAGGAGAA TGTCCCTACC ACTCTTAACA
  GAGATTAAGA AATGCTGCCC ACCAGACCTT TTACAGCTAC AATTATGCCT CAGTTACCTT
  S
  CCTACGGGTA CTGCATCCAA TTCAACCACA CAATGGGAAA GCCATTCCTC TCTGACCAAT
  GAGGAAACTG AGACAAGAGT ACACAACAAA GCTGAGTTTG GGAAAGGATA CATGGACTGT
  AGTGAGCATC TAAGCTTCGA TGCTAATTAC CAGCACTATG GCACTACTTG GAACTAGGCT
  CGATCCTGAG TGCTTCTGCT                                            
  
  S = C/G
  

  
  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
ss403003113	MGP_WTSI_X_7148827	EVA_MGPV3	EVA_MGPV3	f	SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	G	C	C	G	C	C	C	C	G	C	C	C	C	C	G	C	C	C	C	C	C	G	C	C	C	C	C	C	C	G	C	C	C	C
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
rs258594460					SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	G	C	C	G	C	C	C	C	G	C	C	C	C	C	G	C	C	C	C	C	C	G	C	C	C	C	C	C	C	G	C	C	C	C

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
ss403003113	MGP_WTSI_X_7148827	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: ChrX:7437940 () rs orientation: forward

Symbol	Name	Function Class
Cpgi22568	CpG island 22568	1534 bp proximal
Flicr	Foxp3 regulating long intergenic noncoding RNA	1899 bp upstream
Gm36995	predicted gene, 36995	within coordinates
Ppp1r3f	protein phosphatase 1, regulatory subunit 3F	within coordinates
Rr122	regulatory region 122	427 bp distal
Rr689613	regulatory region 689613	506 bp distal
Rr689614	regulatory region 689614	1409 bp proximal
Tssr160371	transcription start site region 160371	510 bp downstream
Tssr160372	transcription start site region 160372	498 bp downstream
Tssr160373	transcription start site region 160373	838 bp upstream
Tssr160374	transcription start site region 160374	911 bp upstream
Tssr160375	transcription start site region 160375	938 bp upstream
Tssr160376	transcription start site region 160376	965 bp upstream
Tssr160377	transcription start site region 160377	972 bp upstream
Tssr160378	transcription start site region 160378	998 bp upstream
Tssr160379	transcription start site region 160379	1036 bp upstream
Tssr160380	transcription start site region 160380	1095 bp upstream
Tssr160381	transcription start site region 160381	1504 bp upstream
Tssr162794	transcription start site region 162794	848 bp upstream
Tssr162795	transcription start site region 162795	620 bp downstream
Tssr162796	transcription start site region 162796	1147 bp downstream