rs221173880 SNP Detail

Summary

• ID
  rs221173880
• Variation Type
  SNP
• Alleles
  C/T

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

Genome Location and Flanking Sequence

• Location
  Chr3:17843131 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GTGAGTGAGA GAGGAAGGTG
  GCCTTGCCAC CCCACCACCT TCATTGAGGT AGAGCAATGG CTTGGTCTGG ATTCTTTCTG
  AAAGAGAAAC TGCAGGAATG CAGAGTTGCT TTTTGCGCCC CAACCTACTT AAAGGAGTGG
  GAGCCAAACC CCTGCTCCCA ACAACAAGCA GCATTTTCCT TATCAGAAGC CCTCTGGGAC
  Y
  CAGCAAGCTT GATAGGCTCT GGCTCTGATG TCCCATAAGG CCCACTCTGT GGCTGGAAGA
  AACATGATCA AAACCCATGG AACTCAGACT TCACTGACCA CAGAGTCCTG CCTGGAAAAG
  TTGAAAACAT TCTCCCGAGC AAGGCCTATT TGTAGAACTC CTCAACCTAG TGTCTGTATA
  GCAAATTCTG ATCCTATTTC                                            
  
  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	129P2/OlaHsd	129S1/SvImJ	129S5/SvEvBrd	A/J	AKR/J	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cByJ	BALB/cJ	BTBR T<+> Itpr3/J	BUB/BnJ	C3H/HeH	C3H/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10J	C57BL/10SnJ	C57BR/cdJ	C57L/J	C58/J	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/1J	DBA/2J	FVB/NJ	I/LnJ	JF1/MsJ	KK/HlJ	LEWES/EiJ	LG/J	LP/J	MA/MyJ	MOLF/EiJ	NOD/ShiLtJ	NON/ShiLtJ	NZB/BlNJ	NZO/HlLtJ	NZW/LacJ	PL/J	PWK/PhJ	QSi3/Ianm	QSi5/Ianm	RF/J	RIIIS/J	SEA/GnJ	SJL/J	SM/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
ss357118648	MGP_WTSI_3_17688967	EVA_MGPV3	EVA_MGPV3	f	SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	C	T	T	C	T	T	T	T	C	T	T	T	T	T	C	T	T	T	T	T	T	C	T	T	T	T	T	T	T	T	T	T	T	T
SNP Consensus Information
SNP					Consensus Type	129P2/OlaHsd	129S1/SvImJ	129S5/SvEvBrd	A/J	AKR/J	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cByJ	BALB/cJ	BTBR T<+> Itpr3/J	BUB/BnJ	C3H/HeH	C3H/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10J	C57BL/10SnJ	C57BR/cdJ	C57L/J	C58/J	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/1J	DBA/2J	FVB/NJ	I/LnJ	JF1/MsJ	KK/HlJ	LEWES/EiJ	LG/J	LP/J	MA/MyJ	MOLF/EiJ	NOD/ShiLtJ	NON/ShiLtJ	NZB/BlNJ	NZO/HlLtJ	NZW/LacJ	PL/J	PWK/PhJ	QSi3/Ianm	QSi5/Ianm	RF/J	RIIIS/J	SEA/GnJ	SJL/J	SM/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
rs221173880					SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	C	T	T	C	T	T	T	T	C	T	T	T	T	T	C	T	T	T	T	T	T	C	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
ss357118648	MGP_WTSI_3_17688967	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:17843131 () rs orientation: forward

Symbol	Name	Function Class
Cpgi12994	CpG island 12994	1836 bp distal
Cpgi12995	CpG island 12995	1447 bp proximal
Gm56811	predicted gene, 56811	1829 bp upstream
Gm66000	predicted gene, 66000	within coordinates
Mir124-2hg	Mir124-2 host gene (non-protein coding)	954 bp upstream
Rr573842	regulatory region 573842	1840 bp distal
Rr573843	regulatory region 573843	1339 bp distal
Rr573844	regulatory region 573844	within coordinates
Rr573845	regulatory region 573845	366 bp proximal
Rr573846	regulatory region 573846	490 bp proximal
Rr573847	regulatory region 573847	1096 bp proximal
Rr573848	regulatory region 573848	1266 bp proximal
Tssr28480	transcription start site region 28480	760 bp upstream
Tssr28481	transcription start site region 28481	925 bp upstream
Tssr28482	transcription start site region 28482	989 bp upstream
Tssr28483	transcription start site region 28483	1084 bp upstream
Tssr28484	transcription start site region 28484	1153 bp upstream
Tssr32678	transcription start site region 32678	640 bp downstream