rs239798458 SNP Detail

Summary

• ID
  rs239798458
• 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
  Chr1:161078811 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GGAAGCGGAT GCGGCCGATG
  GTGGTATTGG CCTCAAAGTT GGGGGCTTCG TCCCCGAGAA GCAACCCTCC GGGCATGGCG
  GCAGTGGTGA CGCTGAGAAC AAGGAGGCGC AGCCGCAGCA GTGAGCAGCG GGCGGGCTCC
  TGCGGAGACC TAGATCAGTG CTGGCCGAGT GGGCGGGGCT GGGGCGGGGC TGGGGCGGGG
  Y
  GGGGCGACCG CGAGTCTGGC GGCTGCGGTT CTTCACGTGG AGCTTGCAGG CAAGGGAGAT
  TCTGGAGCTA AAGAAGGCCA CGTGCAATAG GAAGGAAGCG CAAGACCGAG AATTGCGGGG
  ACTTGTAGAT CTGGCGGCTC TGCAAAGATG CTCTAGGAGA AGGCGGAATT AGCGCAAATC
  CTCTGACATT CTCACCCCTG                                            
  
  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	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	C58/J	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/1J	DBA/2J	FVB/NJ	I/LnJ	JF1/MsJ	KK/HlJ	LG/J	LP/J	MA/MyJ	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
ss352143810	MGP_WTSI_1_163181372	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	C	T	T	T	T
SNP Consensus Information
SNP					Consensus Type	129P2/OlaHsd	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/10J	C57BL/10SnJ	C58/J	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/1J	DBA/2J	FVB/NJ	I/LnJ	JF1/MsJ	KK/HlJ	LG/J	LP/J	MA/MyJ	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
rs239798458					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	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
ss352143810	MGP_WTSI_1_163181372	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:161078811 () rs orientation: forward

Symbol	Name	Function Class
Cpgi926	CpG island 926	within coordinates
Gm70781	predicted gene, 70781	within coordinates
Prdx6	peroxiredoxin 6	31 bp upstream
Rr372334	regulatory region 372334	519 bp downstream
Rr396460	regulatory region 396460	within coordinates
Rr396461	regulatory region 396461	269 bp upstream
Rr421776	regulatory region 421776	489 bp distal
Rr421777	regulatory region 421777	87 bp distal
Rr421778	regulatory region 421778	within coordinates
Rr421779	regulatory region 421779	1469 bp proximal
Tssr14577	transcription start site region 14577	332 bp upstream
Tssr14578	transcription start site region 14578	102 bp upstream
Tssr14579	transcription start site region 14579	97 bp upstream
Tssr14580	transcription start site region 14580	55 bp upstream
Tssr14581	transcription start site region 14581	261 bp downstream