rs6401563 SNP Detail

Summary

• ID
  rs6401563
• Variation Type
  SNP
• Alleles
  A/C

• Created in dbSNP Build
  116
• Last Updated in dbSNP Build
  142
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser
  

Genome Location and Flanking Sequence

• Location
  Chr5:35201958 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                        AGGGT CTTCCCAGAC TCTGCAGGGG
  M
  CAACAGTGCC TAGATGGCTG TTAGC                                      
  
  M = A/C
  

  
  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	CZECHII/EiJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
ss8807760	WI_WGS_5_33752145	WI	MOUSE	f	SNP								A	C
ss47678807	NES10266570	PERLEGEN	MM_PANEL2	f	SNP	A		C	C	C	C	C			A	A	A	C	A	A	C	C
ss148220977	ENSMUSSNP624668	ENSEMBL	ENSEMBL_Sanger	f	SNP		A	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	CZECHII/EiJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
rs6401563					SNP	A	A	C	C	C	C	C	A	C	A	A	A	C	A	A	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
ss47678807	NES10266570	PERLEGEN	MM_PANEL	f	SNP	A/C

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr5:35201958 () rs orientation: forward

Symbol	Name	Function Class
Hgfac	hepatocyte growth factor activator	within coordinates
Rr609835	regulatory region 609835	1457 bp distal
Rr609836	regulatory region 609836	1376 bp distal
Tssr45928	transcription start site region 45928	649 bp upstream
Tssr45929	transcription start site region 45929	661 bp upstream
Tssr45930	transcription start site region 45930	1869 bp upstream