rs46709116 SNP Detail

Summary

• ID
  rs46709116
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  127
• Last Updated in dbSNP Build
  127
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr1:138764538 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                        TTTCTCAGTA GCACAGTCAG GTCTTAGTAA GTGGCTAGAA
  ATTTAAATGT CATCTTCTAT CAATAAAGAA CAATTAGTGT CCTGCCTGTC TTGCCTTGAA
  Y
  GTCGTGCATC AAAGAATATG GAGTGTGCCC TGGGCAATTG GACCCTAGGC AAAGCTCTCT
  GCCTCAGCTT AGCAGGGGTC CCCCAGGCCA GGGTACAACC                      
  
  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	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
ss60805743	NES16482033	PERLEGEN	MM_PANEL2	f	SNP	T	T	T	T	T	T	T	T	T	T	C	T	T	T	T
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
rs46709116					SNP	T	T	T	T	T	T	T	T	T	T	C	T	T	T	T

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
ss60805743	NES16482033	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:138764538 () rs orientation: forward

Symbol	Name	Function Class
Cpgi825	CpG island 825	1531 bp proximal
Lhx9	LIM homeobox protein 9	Intron
Rr419772	regulatory region 419772	1016 bp distal
Rr419773	regulatory region 419773	1255 bp distal