rs260667988 SNP Detail

Summary

• ID
  rs260667988
• Variation Type
  SNP
• Alleles
  C/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
  Chr3:95039836 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TAAAATCATA AACCACCGGG
  CAGTGGTGGT GCACGCCTTT AATCCCAGCA CTTGGGAGGC AGAGGTAAGC AGATTTCTGA
  GGCTAGCCTG GTCTACAGAG TGAGTTCCAG GACAGCCAGG GCTACACAGA GAAACCCTGT
  CTCAAAAAAC AAACAAACAA AAAACCCAAA AAACAAAAAA CCTGAAAAAA TGATGGTTTA
  Y
  GATTTCTTTT ATATATATGA GTACACTGTA GCTGTCTTCA GACACCCCAG AAGAGGGCGC
  CAGATCTCAT TATGGATGGT TGTGAACCAT CATGTGGTTG CTGGGAATTG AACTCAGGAC
  CTCTGGAAGA GCAGTCAGTG CTCTTAACTG CTGAGCCATC TGTCCAGCCC CTACCATCAT
  TTAAAAAAAA TATTTCCACA                                            
  
  Y = C/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	SM/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
ss358895652	MGP_WTSI_3_94936447	EVA_MGPV3	EVA_MGPV3	f	SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	T	C	C	T	C	C	C	C	T	C	C	C	C	C	T	C	C	C	C	C	C	T	C	C	C	C	C	C	C	T	C	C	C	C
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
rs260667988					SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	T	C	C	T	C	C	C	C	T	C	C	C	C	C	T	C	C	C	C	C	C	T	C	C	C	C	C	C	C	T	C	C	C	C

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
ss358895652	MGP_WTSI_3_94936447	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:95039836 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi13498	CpG island 13498			1282 bp proximal
D3Umi10	DNA segment, Chr 3, University of Michigan 10			1202 bp proximal
Lysmd1	LysM, putative peptidoglycan-binding, domain containing 1			1563 bp upstream
Rr367480	regulatory region 367480			1381 bp upstream
Rr580822	regulatory region 580822			43 bp proximal
Rr580823	regulatory region 580823			1476 bp proximal
Rr580824	regulatory region 580824			1574 bp proximal
Scnm1	sodium channel modifier 1			Intron
				Noncoding-Transcript-Variant
Tssr30498	transcription start site region 30498			1085 bp downstream
Tssr34419	transcription start site region 34419			1373 bp downstream
Tssr34420	transcription start site region 34420			1411 bp downstream
Tssr34421	transcription start site region 34421			1464 bp downstream