rs258862089 SNP Detail

Summary

• ID
  rs258862089
• 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
  Chr1:177275742 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              ATGGAACATA GCACTGTGAA
  AGAGAGTGTG AGCACTAACA ACAGGGTACA GTATGAGCCA GCCCACCTGG CTCCTCTGAG
  GGAGGACTCG GTCTTAAGGG AACTGGATCG GGAGGACAAA GCCAGCGATG ATGAGATGAT
  GACCCCAGAG AGCGAGCGGG TCCAGGTGGA AGGGGGCATG GAGAACAGTC TGCTTCCCTA
  Y
  GTCTCCAATA TCCTGAGCCC CGCAGGCCAG ATCTTCATGT GCCCCCTGTG CAACAAAGTC
  TTCCCCAGCC CCCACATCCT GCAGATCCAC CTGAGCACGC ACTTCCGAGA GCAGGATGGC
  ATCCGTAGCA AGCCTGCCGC CGATGTCAAT GTGCCCACGT GCTCCCTGTG TGGGAAGACT
  TTCTCCTGCA TGTACACCCT                                            
  
  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	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
ss352522307	MGP_WTSI_1_179378307	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	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	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
rs258862089					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	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
ss352522307	MGP_WTSI_1_179378307	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:177275742 () rs orientation: forward

Symbol	Name	Function Class
Cpgi1082	CpG island 1082	within coordinates
Rr29056	regulatory region 29056	within coordinates
Rr29057	regulatory region 29057	1458 bp proximal
Tssr312	transcription start site region 312	998 bp downstream
Tssr313	transcription start site region 313	314 bp downstream
Tssr10353	transcription start site region 10353	1041 bp downstream
Tssr10354	transcription start site region 10354	1020 bp downstream
Tssr10355	transcription start site region 10355	976 bp downstream
Tssr10356	transcription start site region 10356	885 bp downstream
Tssr10357	transcription start site region 10357	801 bp downstream
Tssr10358	transcription start site region 10358	718 bp downstream
Tssr10359	transcription start site region 10359	703 bp downstream
Tssr10360	transcription start site region 10360	23 bp upstream
Tssr10361	transcription start site region 10361	67 bp upstream
Zbtb18	zinc finger and BTB domain containing 18	within coordinates