rs258602665 SNP Detail

Summary

• ID
  rs258602665
• 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
  

Genome Location and Flanking Sequence

• Location
  Chr5:31206052 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TACGCCTCGG GCTCCACGGC
  TCGTGCCCCG GGCGGACCAG GCCACGCCCC AGAGTGACAG GATTTGGAAG CTAAGCCTCG
  CCTCAAGGCT GGCGCGTGAC ACGCTGGGGG CGGAGCCTCG CGCTCGGTTC TCGCGAGCTG
  TCAAGACGGT GGAAAGCAGT GGGAAATGGC GTCTCGGGAG TCAGGCGGCT CTCGGGCGGC
  Y
  GCCCTGCTCC TGGTTCTGGG CGTGGAGAGG GCCCTGGCTC TACCTGAGGT ACAGAAGAAA
  GTTTGAGATC TGGCTGAAGA AGGTTGCTGG CCGTCAGCCC GGAATCCAGC TCGCCCGCCG
  GTGTCTGTCC CTTTGGCCAG TCGGAAGCTC AGATTTTTGT CCCTGAAGCT TCCCCGGGCC
  CTGTGCCTGC GGGGATGGTG                                            
  
  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
ss364434637	MGP_WTSI_5_31351081	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	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	T	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
rs258602665					SNP	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	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	T	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
ss364434637	MGP_WTSI_5_31351081	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr5:31206052 () rs orientation: forward

Symbol	Name	Function Class
Atraid	all-trans retinoic acid induced differentiation factor	within coordinates
Cpgi15696	CpG island 15696	within coordinates
Rr112650	regulatory region 112650	1749 bp proximal
Rr125009	regulatory region 125009	within coordinates
Rr399020	regulatory region 399020	within coordinates
Slc5a6	solute carrier family 5 (sodium-dependent vitamin transporter), member 6	within coordinates
Tssr45658	transcription start site region 45658	35 bp downstream
Tssr45659	transcription start site region 45659	321 bp upstream
Tssr50520	transcription start site region 50520	841 bp upstream
Tssr50521	transcription start site region 50521	822 bp upstream
Tssr50522	transcription start site region 50522	699 bp upstream
Tssr50523	transcription start site region 50523	670 bp upstream
Tssr50524	transcription start site region 50524	432 bp upstream