rs3144009 SNP Detail

Summary

• ID
  rs3144009
• 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
  

Genome Location and Flanking Sequence

• Location
  Chr2:118217960 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                        TCCAG CTGAAGGAGG GAGGAGGTGG
  Y
  TTCTAAAAGG CCTTTGTGTT ACCTT                                      
  
  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	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	C57BL/6J	CAST/EiJ	DBA/2J	FVB/NJ	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
ss37653117	NES09022245	PERLEGEN	MM_PANEL2	f	SNP	C	C	C	C	C		C	C	C		T	C	C	T		C
ss45348236	mCV23158133	ABI	CRAMUS_MOUSE	f	SNP	C					T		C
ss147298127	ENSMUSSNP4652238	ENSEMBL	ENSEMBL_Sanger	f	SNP	C							C
ss320469139	CHEV_2_118213215	CHEVERUD	SCREENING_POP	f	SNP										T					C
SNP Consensus Information
SNP					Consensus Type	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	C57BL/6J	CAST/EiJ	DBA/2J	FVB/NJ	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
rs3144009					SNP	C	C	C	C	C	T	C	C	C	T	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
ss37653117	NES09022245	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr2:118217960 () rs orientation: forward

Symbol	Name	Function Class
Cpgi12078	CpG island 12078	848 bp proximal
Eif2ak4	eukaryotic translation initiation factor 2 alpha kinase 4	1139 bp upstream
Rr397204	regulatory region 397204	972 bp upstream
Rr563227	regulatory region 563227	649 bp proximal
Rr563228	regulatory region 563228	1644 bp proximal
Tssr19554	transcription start site region 19554	1111 bp upstream
Tssr19555	transcription start site region 19555	1136 bp upstream
Tssr19556	transcription start site region 19556	1172 bp upstream
Tssr19557	transcription start site region 19557	1195 bp upstream