rs261096104 SNP Detail

Summary

• ID
  rs261096104
• Variation Type
  SNP
• Alleles
  C/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
  Chr3:131196849 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              ACCTCTAGGT GAGCTGGAAG
  GGTGCTTGTT CCCGGTTAGT GAGACTAATG ATGCTACCCA CCTTGTCATT TGCTCCGTTA
  GGTGAATTGC GTCCTGGCAA GGATGAGAAA CCGGAACCAG AATGACTCTG AAAGAGTGAC
  TCTCCACTTA AATGAACCTG TGCGTTTCTG TTGCCTTGGG GCACAAGTGT CCATATGTGT
  S
  TGTGCCCCCC AACCCCCATC CCCGGCCCCG GCTGATCTTA CCAATTAGGT TGCAGGAAGG
  GTTGCTTCTG TCTAAAAATG GCCAAGGATC AGCATTTCTT TGGAGTCGTT TCCACACCTT
  GTAGCAGTTT TCAGTCAACC ACGGTCGTTT TGGAGGGTGT CACTAGGCAT CCAGGCAGCT
  GGCTAAACCT CCAATGAGTT                                            
  
  S = C/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
ss359739314	MGP_WTSI_3_131154052	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	C	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
rs261096104					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	C	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
ss359739314	MGP_WTSI_3_131154052	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:131196849 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi13839	CpG island 13839			150 bp distal
Gm36753	predicted gene, 36753			within coordinates
Rr585351	regulatory region 585351			684 bp distal
Rr585352	regulatory region 585352			within coordinates
Rr585353	regulatory region 585353			402 bp distal
Rr585354	regulatory region 585354			1461 bp proximal
Sgms2	sphingomyelin synthase 2			Intron
				Noncoding-Transcript-Variant
Tssr1055	transcription start site region 1055			1359 bp downstream
Tssr1056	transcription start site region 1056			1057 bp downstream
Tssr31735	transcription start site region 31735			1335 bp downstream
Tssr31736	transcription start site region 31736			683 bp downstream
Tssr31737	transcription start site region 31737			471 bp upstream
Tssr35709	transcription start site region 35709			1331 bp upstream
Tssr35710	transcription start site region 35710			1314 bp upstream
Tssr35711	transcription start site region 35711			1152 bp upstream
Tssr35712	transcription start site region 35712			1122 bp upstream
Tssr35713	transcription start site region 35713			853 bp upstream
Tssr35714	transcription start site region 35714			593 bp upstream
Tssr35715	transcription start site region 35715			557 bp upstream
Tssr35716	transcription start site region 35716			422 bp upstream
Tssr35717	transcription start site region 35717			346 bp upstream
Tssr35718	transcription start site region 35718			320 bp upstream
Tssr35719	transcription start site region 35719			77 bp upstream
Tssr35720	transcription start site region 35720			31 bp upstream
Tssr35721	transcription start site region 35721			187 bp downstream
Tssr35722	transcription start site region 35722			239 bp downstream
Tssr35723	transcription start site region 35723			298 bp downstream
Tssr35724	transcription start site region 35724			311 bp downstream
Tssr35725	transcription start site region 35725			349 bp downstream