rs258682890 SNP Detail

Summary

• ID
  rs258682890
• 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
  Chr8:87472404 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GGCCCGCGAA GCGCGCGGCT
  GACCTCCGCC ATGTTGGCCG TACACCGGGC CACACAACAA AGACTGAGCG AGGGCGCGGG
  CCGTAGTCTC GGCGCGCCCG CCCGCCCTCC GCCTCCCGGA GCCGCCGCTG TCGGCTGGGC
  CCGCCCGGAG AGGCCGAGAC AAAGGCGCCG CGGCTCCGCG AGGGGACCCG CCGGCCCTCC
  Y
  CGGGCCGCGG CCAGCTCCTC CCTCCAGGCC GCCCGCTTAC CTGTGGGCGG AGAGCGCGCC
  GCGGACCCCG GCCCCGTCTA ACGCGCCCGG TCGCCAGCTG CCGCCGCCGC CACCGCCACC
  GCCACCGTCA CCGCCGCCAC CGCGGGCCGC GCCTCCACCT CTCCCGGCAC CGAGACCGAC
  GGGACACCCT GGGCCGCCGC                                            
  
  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	BUB/BnJ	C3H/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10SnJ	C58/J	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/2J	FVB/NJ	JF1/MsJ	KK/HlJ	LG/J	LP/J	MA/MyJ	MOLF/EiJ	NOD/ShiLtJ	NON/ShiLtJ	NZO/HlLtJ	PL/J	PWK/PhJ	QSi3/Ianm	QSi5/Ianm	RIIIS/J	SEA/GnJ	SJL/J	SM/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ
ss375448168	MGP_WTSI_8_89269675	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	T	C	C	C
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	BUB/BnJ	C3H/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10SnJ	C58/J	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/2J	FVB/NJ	JF1/MsJ	KK/HlJ	LG/J	LP/J	MA/MyJ	MOLF/EiJ	NOD/ShiLtJ	NON/ShiLtJ	NZO/HlLtJ	PL/J	PWK/PhJ	QSi3/Ianm	QSi5/Ianm	RIIIS/J	SEA/GnJ	SJL/J	SM/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ
rs258682890					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	T	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
ss375448168	MGP_WTSI_8_89269675	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr8:87472404 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi20765	CpG island 20765			within coordinates
Gm10638	predicted gene 10638			within coordinates
Gm63869	predicted gene, 63869			357 bp upstream
Rr666882	regulatory region 666882			368 bp distal
Rr666883	regulatory region 666883			313 bp distal
Rr666884	regulatory region 666884			within coordinates
Rr666885	regulatory region 666885			148 bp proximal
Siah1a	siah E3 ubiquitin protein ligase 1A			Intron
				mRNA-UTR
Tssr78572	transcription start site region 78572			304 bp downstream
Tssr78573	transcription start site region 78573			261 bp downstream
Tssr78574	transcription start site region 78574			222 bp downstream
Tssr78575	transcription start site region 78575			175 bp downstream
Tssr78576	transcription start site region 78576			144 bp downstream
Tssr78577	transcription start site region 78577			116 bp downstream
Tssr78578	transcription start site region 78578			92 bp downstream
Tssr82293	transcription start site region 82293			174 bp downstream
Tssr82294	transcription start site region 82294			317 bp downstream