rs222504111 SNP Detail

Summary

• ID
  rs222504111
• Variation Type
  SNP
• Alleles
  A/C

• Created in dbSNP Build
  137
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr3:80943888 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TTGAACAGCC CGCAGACTCC
  TTATTTGGGG TTAGGGGCGC CCAGGGGAAA GGAAGCTGGG GGCCGCCTGG CGGCATTCCT
  CGCCGCAGTG TGGGCTCCGT CTGCCGCGGG GCCCGCAGTG CCCCCTGTCT GCGCCAGCAC
  CTGTTGGCCC GCCAGCTGGC CGCCCGCGCC CCCCGCGCCC CCCGCGCCCG CCCGGCCGCC
  M
  GCCCCGCGCC CCGCGCGCCG CCCGCTGGGG GAAAGTGGAG ACGGGGAGGG GACAAGAGCG
  ATCCTCCAGG CCAGCCAGGC CTTCCCTTAG CCGCCCGTGC TTAGCCGCCA CCTCTCCTCA
  GCCCTGCGTC CTGCCCTGCC TTAGGGCAGG CATCCGAGCG CTCGCGACTC CGAGCCGCCC
  AAGCTCTCCC GGCTTCCCGC                                            
  
  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	A/J	AKR/J	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cByJ	BALB/cJ	BTBR T<+> Itpr3/J	BUB/BnJ	C3H/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10SnJ	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/2J	FVB/NJ	JF1/MsJ	KK/HlJ	LP/J	MA/MyJ	NOD/ShiLtJ	NON/ShiLtJ	NZO/HlLtJ	PL/J	PWK/PhJ	QSi3/Ianm	QSi5/Ianm	RIIIS/J	SJL/J	SM/J	SPRET/EiJ	SWR/J	WSB/EiJ
ss358623187	MGP_WTSI_3_80840503	EVA_MGPV3	EVA_MGPV3	f	SNP	A	A	A	A	A	A	A	A	A	A	A	A	C	A	C	C	A	A	C	A	A	A	A	C	C	A	C	A	A	C	A	A	C	A	C
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	AKR/J	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cByJ	BALB/cJ	BTBR T<+> Itpr3/J	BUB/BnJ	C3H/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10SnJ	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/2J	FVB/NJ	JF1/MsJ	KK/HlJ	LP/J	MA/MyJ	NOD/ShiLtJ	NON/ShiLtJ	NZO/HlLtJ	PL/J	PWK/PhJ	QSi3/Ianm	QSi5/Ianm	RIIIS/J	SJL/J	SM/J	SPRET/EiJ	SWR/J	WSB/EiJ
rs222504111					SNP	A	A	A	A	A	A	A	A	A	A	A	A	C	A	C	C	A	A	C	A	A	A	A	C	C	A	C	A	A	C	A	A	C	A	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
ss358623187	MGP_WTSI_3_80840503	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/C

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:80943888 () rs orientation: forward

Symbol	Name	Function Class
Cpgi13283	CpG island 13283	within coordinates
Gm16000	predicted gene 16000	within coordinates
Gm64611	predicted gene, 64611	1081 bp upstream
Pdgfc	platelet-derived growth factor, C polypeptide	mRNA-UTR
Rr375235	regulatory region 375235	915 bp downstream
Rr578681	regulatory region 578681	1692 bp distal
Rr578682	regulatory region 578682	155 bp distal
Rr578683	regulatory region 578683	within coordinates
Rr578684	regulatory region 578684	121 bp distal
Rr578685	regulatory region 578685	65 bp distal
Rr578686	regulatory region 578686	366 bp proximal
Rr578687	regulatory region 578687	529 bp proximal
Rr578688	regulatory region 578688	1092 bp proximal
Tssr29617	transcription start site region 29617	210 bp downstream
Tssr29618	transcription start site region 29618	57 bp upstream
Tssr29619	transcription start site region 29619	384 bp upstream
Tssr29620	transcription start site region 29620	484 bp upstream
Tssr29621	transcription start site region 29621	556 bp upstream
Tssr29622	transcription start site region 29622	631 bp upstream
Tssr29623	transcription start site region 29623	798 bp upstream