rs213259542 SNP Detail

Summary

• ID
  rs213259542
• Variation Type
  SNP
• Alleles
  A/C

• 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
  Chr1:162396712 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              AGCCTCAGTG AAATGATTTC
  TTTTATAAAG GTTGCTGTGG TTACAGTGTC TCTTCACAGC AATAGAACAC TAAATAAGAC
  AGATACTCAC GCTGACCATA GAAATCACAT TTCCTAAGTT TTCACAAATG CTAGTGATAG
  TCAAAGGGTC TCTCCCACAT TACTAAAGAA GAGTGGGGGC ATATGTTCCT GGCCCAAAAG
  M
  AATCAAAATA AGTAGCCAAA TTAAGGCATT ATGACTAAAT ACAAAGAAAA ATAACAGATT
  ACTCATAAGA ATAATAAGGC ATGTATGAAT GACATGTCCA TTGTAGCTCT ACTATCGTAT
  TTCCTTATGC TGTTAACAGA CAAGGACATT AACTAGCTAA GGAAACAAGG CAAGGAAGTT
  CGGCATAGTA AGCAAATATA                                            
  
  M = A/C
  

  
  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
ss352172851	MGP_WTSI_1_164499274	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	A	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	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
rs213259542					SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	A	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	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
ss352172851	MGP_WTSI_1_164499274	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/C

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:162396712 () rs orientation: forward

Symbol	Name	Function Class
Cpgi932	CpG island 932	1119 bp proximal
Rr396472	regulatory region 396472	1261 bp upstream
Rr396473	regulatory region 396473	1999 bp upstream
Rr421988	regulatory region 421988	882 bp proximal
Rr421989	regulatory region 421989	1373 bp proximal
Rr421990	regulatory region 421990	1451 bp proximal
Tssr9715	transcription start site region 9715	1454 bp upstream
Tssr9716	transcription start site region 9716	1524 bp upstream
Tssr9717	transcription start site region 9717	1544 bp upstream
Tssr14622	transcription start site region 14622	1139 bp downstream
Vamp4	vesicle-associated membrane protein 4	1372 bp upstream