rs259805001 SNP Detail

Summary

• ID
  rs259805001
• 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 | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr3:53371125 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              ATTCAGGCTT CTGCCGTGGA
  CGCCTATATT CCCACACTAG GACCCCGCCC CCCCCCCCCG ACGCCCCAAA CTAATCATTT
  GTGCAAAAGC GACTTAAGGT GGCGGTGCAC CATTGCGTCT TGTGGGCGCG ACACGCTCTA
  TCAAAGGTCC CCTGGAGCTG GTGGGGCATT TAGGGGAGCA CCCGCTGGGC GCCTGGCCGT
  M
  TGAGCGCTGA GGTGCTCGAG AGCCTCCCTT CGCAAGGCTC TGGCCCCCTT CGTCCGGCTC
  CTAGTGCGCC CCGGCCGCCC GCCCGCTCCC GGAAGCTACG AAAGCCCGTA ACAAAGGACC
  TGCGGGGGCC GCCGGTTGCC GGAGCTGCGG GACCCCGGGA TCGGGCGGAT CGGCGGGTCT
  GAGCGCCCGC GGGGCCACGT                                            
  
  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	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
ss357982246	MGP_WTSI_3_53267626	EVA_MGPV3	EVA_MGPV3	f	SNP	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	C	A	A	A	A
SNP Consensus Information
SNP					Consensus Type	129P2/OlaHsd	129S1/SvImJ	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
rs259805001					SNP	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	C	A	A	A	A

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
ss357982246	MGP_WTSI_3_53267626	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/C

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:53371125 () rs orientation: forward

Symbol	Name	Function Class
Cpgi13163	CpG island 13163	within coordinates
Nhlrc3	NHL repeat containing 3	446 bp upstream
Proser1	proline and serine rich 1	mRNA-UTR
Rr374971	regulatory region 374971	within coordinates
Rr576696	regulatory region 576696	895 bp distal
Rr576697	regulatory region 576697	28 bp distal
Rr576698	regulatory region 576698	92 bp distal
Rr576699	regulatory region 576699	within coordinates
Tssr29113	transcription start site region 29113	114 bp downstream
Tssr29114	transcription start site region 29114	23 bp downstream
Tssr29115	transcription start site region 29115	within coordinates
Tssr29116	transcription start site region 29116	75 bp upstream
Tssr29117	transcription start site region 29117	191 bp upstream
Tssr33269	transcription start site region 33269	472 bp upstream
Tssr33270	transcription start site region 33270	398 bp upstream