rs253473316 SNP Detail

Summary

• ID
  rs253473316
• 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
  Chr3:131194331 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TCTGAGTTTG AGGCCAGCCT
  GGTCTACAAA GTGAGTTCCA GGACAGCCAG GGCTACACAG AGAAGCACTG TCTCGAAAAA
  CAAAACAAAA CAAAACAACA ACAAAAAAAT TGCACGGACA GGAGAGCTAA CGCAGGACTT
  GGTTATTACC TTGGGTCCCC TACATCCCCA CAGCCACTGC CTGCTCTCCA CACTACCACC
  R
  CTGTAGATAT GAGACCACGT GCTTCTGGTC CTTCCTAATA CCTCCTAGGA CTTTCACCAA
  GCTCTGGGAA AAAGAAACTC GGGGTGAACA ACCTAGAGGT GTTGCTGAGT TTTTCTAAAG
  GTTCAGAAGT CAACCAGTTT GACTTACAAA TGAAACGAAC AGTAAATTAA ATATTAACTT
  GCTTTTAAAA AACAACTCCT                                            
  
  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
ss359739265	MGP_WTSI_3_131151534	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	A	G	G	G	G	G	G	G	G	G	G	G	G	G	A	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	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
rs253473316					SNP	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	A	G	G	G	G	G	G	G	G	G	G	G	G	G	A	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	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
ss359739265	MGP_WTSI_3_131151534	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:131194331 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi13839	CpG island 13839			1042 bp proximal
Gm36753	predicted gene, 36753			1746 bp upstream
Rr585350	regulatory region 585350			within coordinates
Rr585351	regulatory region 585351			1322 bp proximal
Rr585352	regulatory region 585352			1835 bp proximal
Sgms2	sphingomyelin synthase 2			Intron
				Noncoding-Transcript-Variant
Tssr1055	transcription start site region 1055			1142 bp upstream
Tssr1056	transcription start site region 1056			1435 bp upstream
Tssr31735	transcription start site region 31735			1167 bp upstream
Tssr31736	transcription start site region 31736			1781 bp upstream
Tssr35707	transcription start site region 35707			431 bp downstream
Tssr35708	transcription start site region 35708			465 bp downstream
Tssr35709	transcription start site region 35709			1177 bp downstream
Tssr35710	transcription start site region 35710			1193 bp downstream
Tssr35711	transcription start site region 35711			1341 bp downstream
Tssr35712	transcription start site region 35712			1367 bp downstream
Tssr35713	transcription start site region 35713			1608 bp downstream
Tssr35714	transcription start site region 35714			1882 bp downstream
Tssr35715	transcription start site region 35715			1940 bp downstream