rs3144016 SNP Detail

Summary

• ID
  rs3144016
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  105
• Last Updated in dbSNP Build
  138
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr2:118220295 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                        GTTTC CAGGGAACCA GGAAGTAGGG
  Y
  CTAGGCCACC AGAATAGTGT TACAG                                      
  
  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	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
ss37653109	NES09022159	PERLEGEN	MM_PANEL2	f	SNP	T		T	T	T	T	T		T	T	T	C		C	T	T	C		T
ss45342902	mCV23158156	ABI	CRAMUS_MOUSE	f	SNP		T	T					C		T
ss147298191	ENSMUSSNP3586929	ENSEMBL	ENSEMBL_Sanger	f	SNP		T	T
ss320469152	CHEV_2_118215550	CHEVERUD	SCREENING_POP	f	SNP													C					T
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	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
rs3144016					SNP	T	T	T	T	T	T	T	C	T	T	T	C	C	C	T	T	C	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
ss37653109	NES09022159	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr2:118220295 () rs orientation: forward

Symbol	Name	Function Class
Cpgi12078	CpG island 12078	839 bp distal
Eif2ak4	eukaryotic translation initiation factor 2 alpha kinase 4	Intron
Rr397204	regulatory region 397204	1062 bp downstream
Rr563227	regulatory region 563227	692 bp distal
Rr563228	regulatory region 563228	343 bp distal
Tssr19554	transcription start site region 19554	1208 bp downstream
Tssr19555	transcription start site region 19555	1174 bp downstream
Tssr19556	transcription start site region 19556	1145 bp downstream
Tssr19557	transcription start site region 19557	1131 bp downstream