rs238780877 SNP Detail

Summary

• ID
  rs238780877
• 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 | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr3:9069232 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GGGGACTCCT CTTACTGCAA
  ATATCTACAC CCAAACACTG TGGCTACGGG CTCAAAGGCC ACCAACAATT CCAACTGGCG
  AGCAGGAAGT CTTCACAAGC CATGGTCCCA TCTGAACGCC ATCACTTCCA GGATCTGCCG
  GTGACCCCCG AGGCCAGCGC GCTGCCGGGG TGGCCCTCGC TGCGCGCATC CTAACACCTC
  Y
  GTGGCCTCTC GCCACCCTAC TCCTCCCCGC ACCCTCGCAC GCGATCGCGC ACACTCGCTC
  GGGCACGCCT GAACACACTC GCTCACACTC CGGCTCCCAC GGCGCGGCCC CTCCTCCCTC
  TCCGCGCTCG TAAGAGGCTC CGGGGGCTCG GCCACCGAAC CGGACCGGGT CGGGATGACC
  CAGACGCGGC TCCGAGGCTC                                            
  
  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
ss356913800	MGP_WTSI_3_9004172	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	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	C	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
rs238780877					SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	C	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
ss356913800	MGP_WTSI_3_9004172	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:9069232 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi12969	CpG island 12969			within coordinates
Rr374475	regulatory region 374475			within coordinates
Rr573365	regulatory region 573365			826 bp distal
Rr573366	regulatory region 573366			within coordinates
Rr573367	regulatory region 573367			257 bp proximal
Rr573368	regulatory region 573368			1387 bp proximal
Tpd52	tumor protein D52			Intron
				mRNA-UTR
				Noncoding-Transcript-Variant
Tssr32570	transcription start site region 32570			316 bp upstream
Tssr32571	transcription start site region 32571			250 bp downstream
Tssr32572	transcription start site region 32572			282 bp downstream
Tssr32573	transcription start site region 32573			300 bp downstream
Tssr32574	transcription start site region 32574			452 bp downstream
Tssr32575	transcription start site region 32575			514 bp downstream
Tssr32576	transcription start site region 32576			588 bp downstream