rs260689471 SNP Detail

Summary

• ID
  rs260689471
• 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
  Chr3:5639999 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TTGCCATGTT TGTCCCTTTT
  AAAAATAAGG AATACATAAC TTTAGGATGC CAGAATAACC GGATGAATGC ATACTGAAAA
  CAATGAACAA TTGTGCTAAG AAGAATTTTC ATGCTGAGGA GCAAGTCAGA TCATCGGGTC
  CAAGATGTGA ACTAGATCCT TACAGGAACA CTGTTGTAAA AGAACATATA AATAGCTGTG
  Y
  TTGTTAAACG ACAGTTGACA GCCGGCTTGC TTTGTCTCTC CTCTGCATGG CTTCAGGAAA
  TTTCTACAAA AGTTCTTTTA TGGAACAATT TTAAAGCCAC AGATTGAGTG CTACCTCTAA
  TTACTAAAGA AGAGAATTAG TCCAAAAGGT AGAGCTGGGC AGAAGCAAAC TATAATCAAG
  ACTAGAACTT AATTCTTTTC                                            
  
  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
ss356836784	MGP_WTSI_3_5574939	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
rs260689471					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
ss356836784	MGP_WTSI_3_5574939	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:5639999 () rs orientation: forward

Symbol	Name	Function Class
Cpgi12950	CpG island 12950	806 bp proximal
Gm6146	predicted gene 6146	1263 bp upstream
Pex2	peroxisomal biogenesis factor 2	Intron
Rr573198	regulatory region 573198	355 bp proximal
Rr573199	regulatory region 573199	1179 bp proximal
Rr573200	regulatory region 573200	1434 bp proximal
Rr573201	regulatory region 573201	1563 bp proximal
Tssr28281	transcription start site region 28281	940 bp upstream
Tssr32526	transcription start site region 32526	1155 bp downstream
Tssr32527	transcription start site region 32527	1172 bp downstream
Tssr32528	transcription start site region 32528	1233 bp downstream
Tssr32529	transcription start site region 32529	1280 bp downstream
Tssr32530	transcription start site region 32530	1294 bp downstream