rs260729242 SNP Detail

Summary

• ID
  rs260729242
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  137
• Last Updated in dbSNP Build
  142
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr3:105708436 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                        CCGCG GGCGTGGCTG GCTCCGGCCT
  Y
  CAGCCGCGGC CCCTCCCGCC CGCCG                                      
  
  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	A/J	AKR/J	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cByJ	BALB/cJ	BTBR T<+> Itpr3/J	C3H/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10SnJ	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/2J	FVB/NJ	JF1/MsJ	LP/J	MA/MyJ	NOD/ShiLtJ	NON/ShiLtJ	NZO/HlLtJ	PL/J	PWK/PhJ	QSi3/Ianm	QSi5/Ianm	RIIIS/J	SJL/J	SPRET/EiJ	SWR/J	WSB/EiJ
ss916333462	MGP_WTSI_3_105801120	EVA_MGPV3	EVA_MGPV3	f	SNP	T	T	T	T	T	T	T	T	T	T	T	C	T	T	C	T	T	C	T	C	T	T	C	T	C	T	T	C	T	C	T	T
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	C3H/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10SnJ	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/2J	FVB/NJ	JF1/MsJ	LP/J	MA/MyJ	NOD/ShiLtJ	NON/ShiLtJ	NZO/HlLtJ	PL/J	PWK/PhJ	QSi3/Ianm	QSi5/Ianm	RIIIS/J	SJL/J	SPRET/EiJ	SWR/J	WSB/EiJ
rs260729242					SNP	T	T	T	T	T	T	T	T	T	T	T	C	T	T	C	T	T	C	T	C	T	T	C	T	C	T	T	C	T	C	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
ss916333462	MGP_WTSI_3_105801120	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:105708436 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi13662	CpG island 13662			within coordinates
Rap1a	RAS-related protein 1a			Intron
				mRNA-UTR
				Noncoding-Transcript-Variant
Rr582779	regulatory region 582779			1943 bp distal
Rr582780	regulatory region 582780			1462 bp distal
Rr582781	regulatory region 582781			272 bp distal
Rr582782	regulatory region 582782			within coordinates
Rr582783	regulatory region 582783			155 bp proximal
Tssr34930	transcription start site region 34930			433 bp upstream
Tssr34931	transcription start site region 34931			179 bp downstream
Tssr34932	transcription start site region 34932			203 bp downstream