rs6228972 SNP Detail

Summary

• ID
  rs6228972
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  116
• Last Updated in dbSNP Build
  138
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr17:25380626 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                        GTGCA GATGGCACTT TAAACAGTAG
  Y
  TGCTGTCTGT GTCGGGCAGT GGTGC                                      
  
  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	129X1/SvJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	C57BL/6J	CAST/EiJ	CZECHII/EiJ	DBA/2J	FVB/NJ	KK/HlJ	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
ss8634685	WI_WGS_17_24352655	WI	MOUSE	f	SNP							T		C
ss48356200	NES12249608	PERLEGEN	MM_PANEL2	f	SNP		C	C	C	C	C		C		C	C	C		T	C	T	T		C
ss145379500	ENSMUSSNP3231782	ENSEMBL	ENSEMBL_Sanger	f	SNP	C	C								C
ss325336437	CHEV_17_25298597	CHEVERUD	SCREENING_POP	f	SNP													C					T
SNP Consensus Information
SNP					Consensus Type	129X1/SvJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	C57BL/6J	CAST/EiJ	CZECHII/EiJ	DBA/2J	FVB/NJ	KK/HlJ	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
rs6228972					SNP	C	C	C	C	C	C	T	C	C	C	C	C	C	T	C	T	T	T	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
ss48356200	NES12249608	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr17:25380626 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Ccdc154	coiled-coil domain containing 154			809 bp upstream
Clcn7	chloride channel, voltage-sensitive 7			mRNA-UTR
				Noncoding-Transcript-Variant
Mir12188	microRNA 12188			1076 bp downstream
Tssr143140	transcription start site region 143140			1953 bp downstream
Tssr143141	transcription start site region 143141			789 bp upstream