rs3706616 SNP Detail

Summary

• ID
  rs3706616
• Variation Type
  SNP
• Alleles
  C/G

• Created in dbSNP Build
  107
• Last Updated in dbSNP Build
  138
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr1:172317899 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                        AGACA CCTCCCTTAG TTCTGGAAGT
  S
  AAGGAGCTGG AGGCGGTTAC CTTGC                                      
  
  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	129S1/SvImJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	C57BL/6J	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
ss5082855	WI_WGS_1_173780505	WI	MOUSE	f	SNP	G						C
ss44933372	mCV23003448	ABI	CRAMUS_MOUSE	f	SNP	G	G					C		G
ss49751633	NES13027853	PERLEGEN	MM_PANEL2	f	SNP	G	G	G	G	G	G		C	G	G	G		C	G	G	G		G
ss120011520	PARCsnp_1.19838	PARC_SEQ	INBRED	f	SNP							C		G
ss120014510	PARCsnp_1.09879	PARC_SEQ	INBRED	f	SNP							C		G
ss146193609	ENSMUSSNP3604531	ENSEMBL	ENSEMBL_Sanger	f	SNP		G							G
ss320125703	CHEV_1_174420463	CHEVERUD	SCREENING_POP	f	SNP												G					G
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	C57BL/6J	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
rs3706616					SNP	G	G	G	G	G	G	C	C	G	G	G	G	C	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
ss49751633	NES13027853	PERLEGEN	MM_PANEL	f	SNP	C/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:172317899 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi1051	CpG island 1051			181 bp proximal
Igsf9	immunoglobulin superfamily, member 9			Coding-Synonymous
				Noncoding-Transcript-Variant
Rr423587	regulatory region 423587			1196 bp distal
Rr423588	regulatory region 423588			624 bp distal
Rr423589	regulatory region 423589			235 bp proximal
Rr423590	regulatory region 423590			414 bp proximal
Tssr10205	transcription start site region 10205			1848 bp upstream