rs252059130 SNP Detail

Summary

• ID
  rs252059130
• 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
  Chr3:136375917 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CCAGACCACC GCCTTAGCGA
  TGAGGGACGC GCTCTCCAGC CAATGAGCTT GCGAGGTGCA ACGTGGGGCG GGCCCTAAGG
  CGGACCCCGA GGAGGAGGTG GCCAGGGCGC TGGAGGCGGG GGCGGTGAGG AGGAAGGGGA
  GGAGGCGGAG GCGGGCGCGG TGGTGGCGGC GGCCGGCGCG GCGGCGGAGG CGAGGTTGTG
  Y
  CCCGGACTGT GTCCACCGAG CTCAGCGGCT GTTGCCTGTG CGTGGAGAAG CAGCGGCGCC
  GCGAGGCAGA GGAGGATCGC GGACGAGCGC GGCGGCGGGA CGTCTACGGC TGCCGCGGCC
  CCGGCGGCGC CCGGCGACAA TCGGCGTGGG GAAGCAGCGG CGGCCGCAGC GGCAGCCGCC
  TCTCCAGCAC CGGGAAGCCG                                            
  
  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	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/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	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	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
ss359865502	MGP_WTSI_3_136333120	EVA_MGPV3	EVA_MGPV3	f	SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	T	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
SNP Consensus Information
SNP					Consensus Type	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/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	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	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
rs252059130					SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	T	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

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
ss359865502	MGP_WTSI_3_136333120	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:136375917 () rs orientation: forward

Symbol	Name	Function Class
Cpgi13862	CpG island 13862	within coordinates
Gm56786	predicted gene, 56786	212 bp upstream
Ppp3ca	protein phosphatase 3, catalytic subunit, alpha isoform	within coordinates
Rr398056	regulatory region 398056	6 bp downstream
Rr398057	regulatory region 398057	646 bp upstream
Rr585833	regulatory region 585833	1628 bp distal
Rr585834	regulatory region 585834	244 bp distal
Rr585835	regulatory region 585835	842 bp distal
Rr585836	regulatory region 585836	22 bp distal
Rr585837	regulatory region 585837	124 bp proximal
Rr585838	regulatory region 585838	625 bp proximal
Tssr31863	transcription start site region 31863	within coordinates
Tssr31864	transcription start site region 31864	32 bp upstream
Tssr31865	transcription start site region 31865	62 bp upstream
Tssr31866	transcription start site region 31866	100 bp upstream
Tssr31867	transcription start site region 31867	124 bp upstream
Tssr31868	transcription start site region 31868	264 bp upstream
Tssr31869	transcription start site region 31869	274 bp upstream
Tssr31870	transcription start site region 31870	300 bp upstream
Tssr31871	transcription start site region 31871	364 bp upstream
Tssr31872	transcription start site region 31872	413 bp upstream
Tssr31873	transcription start site region 31873	430 bp upstream
Tssr31874	transcription start site region 31874	523 bp upstream
Tssr31875	transcription start site region 31875	659 bp upstream
Tssr31876	transcription start site region 31876	711 bp upstream
Tssr35849	transcription start site region 35849	219 bp upstream