rs242040176 SNP Detail

Summary

• ID
  rs242040176
• Variation Type
  SNP
• Alleles
  G/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
  Chr12:73955226 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GCCGCCGGCC GGGAAGACAA
  CGCGGGCACC GATTCGCCAT GGAGGGCGCC GGCGGCGAGA ACGAGAAGAA AAAGTAAGCC
  GGGCCGCCGC GTTCCGTGGA CTGGCTTTTT TTTTTTTTTT TTTTTTGTCT CCGCTCCCCT
  TCCGTCCCCC CCAGCCTCAC GCGCCGGGCT CCCCCGCGGT CCACGTCGCC ATCTTGGCGC
  K
  GGGGGTGGGA GTCGCGGGCC CTGCGCTCGG CGGGGCTGGG GTCTCCGCCC CGGACACCCG
  CCCCGCGCCG TCGCAGCCCA GCCTGCCCCG CGCGCCCATC CGGCCGAGCC GGCCAGGGCC
  GAGTACGCCT CTAGCTCCCG CGCCTTCCCT CCCCGTCCTC CGCGTTAGCC GCGAGCAGCG
  GGCCCCGGGC GGACCCTGTG                                            
  
  K = G/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	129S1/SvImJ	A/J	AKR/J	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cByJ	BALB/cJ	BTBR T<+> Itpr3/J	BUB/BnJ	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/2J	FVB/NJ	I/LnJ	JF1/MsJ	KK/HlJ	LG/J	LP/J	MA/MyJ	MOLF/EiJ	NOD/ShiLtJ	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
ss386495908	MGP_WTSI_12_75009439	EVA_MGPV3	EVA_MGPV3	f	SNP	G	G	T	T	T	T	G	T	G	T	T	T	T	T	T	T	T	G	T	G	T	T	T	G	G	T	G	G	G	T	G	G	T	G	T	T	T	G	G	T	G	G	G	T	G
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	AKR/J	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cByJ	BALB/cJ	BTBR T<+> Itpr3/J	BUB/BnJ	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/2J	FVB/NJ	I/LnJ	JF1/MsJ	KK/HlJ	LG/J	LP/J	MA/MyJ	MOLF/EiJ	NOD/ShiLtJ	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
rs242040176					SNP	G	G	T	T	T	T	G	T	G	T	T	T	T	T	T	T	T	G	T	G	T	T	T	G	G	T	G	G	G	T	G	G	T	G	T	T	T	G	G	T	G	G	G	T	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
ss386495908	MGP_WTSI_12_75009439	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	G/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr12:73955226 () rs orientation: forward

Symbol	Name	Function Class
Cpgi4761	CpG island 4761	within coordinates
Hif1a	hypoxia inducible factor 1, alpha subunit	Intron
Rr467871	regulatory region 467871	538 bp distal
Rr467872	regulatory region 467872	within coordinates
Rr467873	regulatory region 467873	461 bp distal
Rr467874	regulatory region 467874	762 bp proximal
Tssr113838	transcription start site region 113838	482 bp downstream
Tssr113839	transcription start site region 113839	437 bp downstream
Tssr113840	transcription start site region 113840	386 bp downstream
Tssr113841	transcription start site region 113841	282 bp downstream
Tssr113842	transcription start site region 113842	216 bp downstream
Tssr113843	transcription start site region 113843	71 bp downstream
Tssr113844	transcription start site region 113844	1160 bp upstream
Tssr113845	transcription start site region 113845	1633 bp upstream