rs3689963 SNP Detail

Summary

• ID
  rs3689963
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  107
• Last Updated in dbSNP Build
  142
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr4:101364804 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                        AGTAG ACATGGGCCA CTGTAGGGCA
  Y
  CCACTGCCTC TGTGTGGTGC CATTG                                      
  
  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	129S1/SvImJ	129X1/SvJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	C57BL/6J	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
ss5066068	WI_WGS_4_99280706	WI	MOUSE	f	SNP							T	C
ss38312394	NES09533113	PERLEGEN	MM_PANEL2	f	SNP	C		T	C	T	C	T		C	C	C	T	C	C	T	C	C
ss45613212	mCV22691125	ABI	CRAMUS_MOUSE	f	SNP		C	T					C		C
ss147123440	ENSMUSSNP6487542	ENSEMBL	ENSEMBL_Sanger	f	SNP		C	T							C
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	129X1/SvJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	C57BL/6J	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
rs3689963					SNP	C	C	T	C	T	C	T	C	C	C	C	T	C	C	T	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
ss38312394	NES09533113	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr4:101364804 () rs orientation: forward

Symbol	Name	Function Class
Cpgi14502	CpG island 14502	1287 bp proximal
Dnajc6	DnaJ heat shock protein family (Hsp40) member C6	Intron
Rr367654	regulatory region 367654	within coordinates
Rr596168	regulatory region 596168	1215 bp distal
Rr596169	regulatory region 596169	1033 bp distal
Rr596170	regulatory region 596170	within coordinates
Rr596171	regulatory region 596171	55 bp proximal
Rr596172	regulatory region 596172	404 bp proximal
Rr596173	regulatory region 596173	1590 bp proximal
Tssr37997	transcription start site region 37997	112 bp downstream
Tssr37998	transcription start site region 37998	154 bp upstream
Tssr37999	transcription start site region 37999	177 bp upstream
Tssr38000	transcription start site region 38000	248 bp upstream
Tssr38001	transcription start site region 38001	324 bp upstream
Tssr38002	transcription start site region 38002	340 bp upstream
Tssr38003	transcription start site region 38003	492 bp upstream