rs260573705 SNP Detail

Summary

• ID
  rs260573705
• 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
  Chr3:5639933 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              ATGGGAATTA TGAGTGATCA
  AAAAGACAGA ATTAAACTTT TCTTATTTTT AAAAAATAAG ATAGCATTGC CATGTTTGTC
  CCTTTTAAAA ATAAGGAATA CATAACTTTA GGATGCCAGA ATAACCGGAT GAATGCATAC
  TGAAAACAAT GAACAATTGT GCTAAGAAGA ATTTTCATGC TGAGGAGCAA GTCAGATCAT
  Y
  GGGTCCAAGA TGTGAACTAG ATCCTTACAG GAACACTGTT GTAAAAGAAC ATATAAATAG
  CTGTGCTTGT TAAACGACAG TTGACAGCCG GCTTGCTTTG TCTCTCCTCT GCATGGCTTC
  AGGAAATTTC TACAAAAGTT CTTTTATGGA ACAATTTTAA AGCCACAGAT TGAGTGCTAC
  CTCTAATTAC TAAAGAAGAG                                            
  
  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
ss356836781	MGP_WTSI_3_5574873	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
rs260573705					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
ss356836781	MGP_WTSI_3_5574873	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:5639933 () rs orientation: forward

Symbol	Name	Function Class
Cpgi12950	CpG island 12950	872 bp proximal
Gm6146	predicted gene 6146	1329 bp upstream
Pex2	peroxisomal biogenesis factor 2	Intron
Rr573198	regulatory region 573198	421 bp proximal
Rr573199	regulatory region 573199	1245 bp proximal
Rr573200	regulatory region 573200	1500 bp proximal
Rr573201	regulatory region 573201	1629 bp proximal
Tssr28281	transcription start site region 28281	1006 bp upstream
Tssr32526	transcription start site region 32526	1221 bp downstream
Tssr32527	transcription start site region 32527	1238 bp downstream
Tssr32528	transcription start site region 32528	1299 bp downstream
Tssr32529	transcription start site region 32529	1346 bp downstream
Tssr32530	transcription start site region 32530	1360 bp downstream