rs48727399 SNP Detail

Summary

• ID
  rs48727399
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  127
• Last Updated in dbSNP Build
  142
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser
  

Genome Location and Flanking Sequence

• Location
  Chr1:64993916 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                        CTTGG GTGTCAAATT AACAATGTGT
  Y
  TGCAGGTTTT CTGATAAACC TCCAG                                      
  
  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	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	LG/J	MOLF/EiJ	MSM/Ms	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
ss60745018	NES16383986	PERLEGEN	MM_PANEL2	f	SNP	T		T	T	C	T	T	T	T	T	T		T		T	T	T		T
ss149168848	ENSMUSSNP4526977	ENSEMBL	ENSEMBL_Sanger	f	SNP		T							T					T
ss319746076	CHEV_1_65001331	CHEVERUD	SCREENING_POP	f	SNP												T						T
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	129X1/SvJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	LG/J	MOLF/EiJ	MSM/Ms	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
rs48727399					SNP	T	T	T	T	C	T	T	T	T	T	T	T	T	T	T	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
ss60745018	NES16383986	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:64993916 () rs orientation: forward

Symbol	Name	Function Class
Cpgi329	CpG island 329	1668 bp proximal
Gm51627	predicted gene, 51627	1745 bp upstream
Plekhm3	pleckstrin homology domain containing, family M, member 3	within coordinates
Rr412356	regulatory region 412356	1481 bp proximal
Rr412357	regulatory region 412357	1756 bp proximal
Rr412358	regulatory region 412358	1988 bp proximal
Tssr11945	transcription start site region 11945	1954 bp downstream
Tssr11946	transcription start site region 11946	1974 bp downstream