rs229505392 SNP Detail

Summary

• ID
  rs229505392
• Variation Type
  SNP
• Alleles
  A/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
  Chr4:117742671 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CAGCCCCAAA CATGGAGTAA
  CCTGGAGGAT AAGAAGTAGC TCGTGAGGTG GAGGCAAGCA GGAGAGGAAT GGTCCAGTGT
  GGGCTAGCAG GGCCAGTCCC ACCCCAACTC TGCAGAGCTG AGACTCTCAG CTATGGAGCC
  AGGAAGCAGG AGTAAGTGTG TAAGGCCCAG GTGTGTACGT GTGGTAGAAG CAAGTGTGTA
  W
  GGCCCAGGCG TGTATGTGTG GTAGGGTGTC TGTCTCACTA TGTCATTATG TAGTGCTGGC
  TGGCCTCTTA ACTCACTTGG TGCTACCCCC GTCCCAGGAC TGGGGTTAAA GGCCCAGAGC
  ACCATGCCGA GTGAGCTCTA TGTTACCCAC TTACCTGCAT GGTAGTTTCG ATGGCCAATG
  GCCTTGGGCT CCGTAGCACT                                            
  
  W = A/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	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
ss362979362	MGP_WTSI_4_117558079	EVA_MGPV3	EVA_MGPV3	f	SNP	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	T	A	A	A	A
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	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
rs229505392					SNP	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	T	A	A	A	A

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
ss362979362	MGP_WTSI_4_117558079	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr4:117742671 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Atp6v0b	ATPase, H+ transporting, lysosomal V0 subunit B			Intron
				Noncoding-Transcript-Variant
B4galt2	UDP-Gal:betaGlcNAc beta 1,4- galactosyltransferase, polypeptide 2			1947 bp upstream
Cpgi14670	CpG island 14670			1630 bp distal
Cpgi14671	CpG island 14671			1282 bp proximal
Gm12841	predicted gene 12841			within coordinates
Rr598247	regulatory region 598247			1890 bp distal
Rr598249	regulatory region 598249			1241 bp distal
Rr598250	regulatory region 598250			1769 bp proximal
Rr598251	regulatory region 598251			1836 bp proximal
Tssr38640	transcription start site region 38640			1895 bp downstream
Tssr38641	transcription start site region 38641			1864 bp downstream
Tssr43002	transcription start site region 43002			1967 bp upstream
Tssr43003	transcription start site region 43003			946 bp upstream
Tssr43004	transcription start site region 43004			1773 bp downstream
Tssr43005	transcription start site region 43005			1793 bp downstream
Tssr43006	transcription start site region 43006			1805 bp downstream
Tssr43007	transcription start site region 43007			1818 bp downstream