rs254084272 SNP Detail

Summary

• ID
  rs254084272
• Variation Type
  SNP
• Alleles
  A/G

• 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
  Chr3:133248940 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TAACAGGACC TTCTCAAGAG
  TCTGGCCAGG CCTCACTTGG TTTCGCCAAA CGTAGAAAAC TCTCCATAGA AGAAACCCTA
  TAAGCTTTCT AACAGTTAGC AAGCAGGTCT AGGGAAGAGA GTCAAGCTCT GAGTGAAGAG
  TGAGGAGGGG TGTTTGTGAA CGACCAAATA AAAGAGTGAG TGCCAGAGTG AAGGAAATTT
  R
  GGATGGGACT TGTTAGAGAT CTTCTCTGGG ATTGGGTTTC ATTTCTTCGG GCGCCCCTGA
  CCTTGCCTTC TCCAACTCCA AACGCTTCGC CCGCCCCCTC CCCCGGCCTG CGCCTGCCTT
  TGTGTGTGCC TGTCACTTAA GGGGAACAGA ACGAGCTGAT TCGGGGGCAG CACAAAGCCA
  ACACACAGAT TTGCACAGAT                                            
  
  R = A/G
  

  
  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
ss359791668	MGP_WTSI_3_133206143	EVA_MGPV3	EVA_MGPV3	f	SNP	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	A	G	G	G	G
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
rs254084272					SNP	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	A	G	G	G	G

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
ss359791668	MGP_WTSI_3_133206143	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:133248940 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Gm42567	predicted gene 42567			393 bp upstream
Rr398035	regulatory region 398035			846 bp downstream
Rr585563	regulatory region 585563			726 bp distal
Rr585564	regulatory region 585564			within coordinates
Rr585565	regulatory region 585565			431 bp proximal
Rr585566	regulatory region 585566			435 bp proximal
Rr585567	regulatory region 585567			1179 bp proximal
Rr585568	regulatory region 585568			1907 bp proximal
Tet2	tet methylcytosine dioxygenase 2			Intron
				Noncoding-Transcript-Variant
Tssr35764	transcription start site region 35764			1071 bp downstream
Tssr35765	transcription start site region 35765			1089 bp downstream
Tssr35766	transcription start site region 35766			1226 bp downstream
Tssr35767	transcription start site region 35767			1471 bp downstream
Tssr35768	transcription start site region 35768			1950 bp downstream