rs238459052 SNP Detail

Summary

• ID
  rs238459052
• 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
  Chr3:51469122 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GGAATTCAGC AAACCCAAAT
  GGCAGCAGGC TGGTAATCAG GCCGCACCCG AGCTTTGGCC GATTCCTTCT CCTTGTCTTG
  AAGATGGAGC CACCAAGCGG AGAGCCGGAG CCAGGACCCT GTGTCTAGCG CTCCTCCTTC
  TCTCGCCTCC GGTCCTGTAT TTGTGATGTC CCTAGATGTT TCTTTAGTTT CTCCAAGTGC
  Y
  AACCACTTCA CAGACTCAGG CATCTTTGAG GGAAGAAAAC TCCCTTCCCA GCCCAGCCAC
  TTAAAGAGTG TCATTATGTC CTCTTACAGG TGGCAGCAAA GGATCTCTTT AAATAGCGGG
  TTAAATGCAT GCGCATGTAC CCAATGTACT GTGGAATTAC CCGGTGCTGG TCTGGCCTTC
  TGCCAAGAAC AGTCATCGTG                                            
  
  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
ss357933048	MGP_WTSI_3_51365623	EVA_MGPV3	EVA_MGPV3	f	SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	T	C	C	C	C
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
rs238459052					SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	T	C	C	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
ss357933048	MGP_WTSI_3_51365623	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:51469122 () rs orientation: forward

Symbol	Name	Function Class
5031434O11Rik	RIKEN cDNA 5031434O11 gene	within coordinates
Cpgi13142	CpG island 13142	136 bp distal
Rr397660	regulatory region 397660	1880 bp downstream
Rr576339	regulatory region 576339	1656 bp distal
Rr576340	regulatory region 576340	833 bp distal
Rr576341	regulatory region 576341	968 bp distal
Rr576342	regulatory region 576342	427 bp distal
Rr576343	regulatory region 576343	within coordinates
Rr576344	regulatory region 576344	289 bp distal
Setd7	SET domain containing (lysine methyltransferase) 7	822 bp upstream
Tssr29063	transcription start site region 29063	1920 bp downstream
Tssr29064	transcription start site region 29064	1725 bp downstream
Tssr33226	transcription start site region 33226	1015 bp upstream
Tssr33227	transcription start site region 33227	892 bp upstream
Tssr33228	transcription start site region 33228	826 bp upstream
Tssr33229	transcription start site region 33229	81 bp downstream