rs258460779 SNP Detail

Summary

• ID
  rs258460779
• Variation Type
  SNP
• Alleles
  C/G

• 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
  Chr3:131196205 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CCGGGCGGCT CCGGCGGCGC
  CGAGGGCGGG GTCTCCGGCC GGCGGAGCCC GGGGCAGCGC GCAGCTCTGT TTACCGCGGG
  CCCGCCCTCC TCCCCAGCCC GCGCCCTGAC ATCATTCATT CTCGCACTCT CGCCAGCCCT
  CTCCTGCTCC CAGCCGTGAC TCACCCCGGG CCCGAGGCTC CCGCGGGCTC CCGCGACTCC
  S
  GGCGACCGAG TCTCTCCGGA CGCCTAGCCG AGCTCGAAAA ACCGGTGCGA CTTCTTCGGG
  GAGGCGATCC CAGCTGGCCG ACCGACCCTC CCTCCCCTCT GCGGCCCTAC AAGATGCGGC
  GAAGGAGGGG CTTGGCAGGC AGCACGAGGT GGCTCCCGGC CGCAGGCTGA GCGCAGAGCC
  GGGCAGACCT CCCTGAACGC                                            
  
  S = C/G
  

  
  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/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	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	SM/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
ss359739308	MGP_WTSI_3_131153408	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	G	C	C	C	C	G	C	C	C	C	C	C	C	C	C	C	C	G	C	C	C	C	C	C	C	C	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/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	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	SM/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
rs258460779					SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	G	C	C	C	C	G	C	C	C	C	C	C	C	C	C	C	C	G	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
ss359739308	MGP_WTSI_3_131153408	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:131196205 () rs orientation: forward

Symbol	Name	Function Class
Cpgi13839	CpG island 13839	within coordinates
Gm36753	predicted gene, 36753	within coordinates
Rr585350	regulatory region 585350	1553 bp distal
Rr585351	regulatory region 585351	40 bp distal
Rr585352	regulatory region 585352	within coordinates
Rr585353	regulatory region 585353	221 bp proximal
Sgms2	sphingomyelin synthase 2	within coordinates
Tssr1055	transcription start site region 1055	715 bp downstream
Tssr1056	transcription start site region 1056	413 bp downstream
Tssr31735	transcription start site region 31735	691 bp downstream
Tssr31736	transcription start site region 31736	39 bp downstream
Tssr31737	transcription start site region 31737	1115 bp upstream
Tssr35707	transcription start site region 35707	1423 bp upstream
Tssr35708	transcription start site region 35708	1394 bp upstream
Tssr35709	transcription start site region 35709	687 bp upstream
Tssr35710	transcription start site region 35710	670 bp upstream
Tssr35711	transcription start site region 35711	508 bp upstream
Tssr35712	transcription start site region 35712	478 bp upstream
Tssr35713	transcription start site region 35713	209 bp upstream
Tssr35714	transcription start site region 35714	8 bp downstream
Tssr35715	transcription start site region 35715	66 bp downstream
Tssr35716	transcription start site region 35716	209 bp downstream
Tssr35717	transcription start site region 35717	285 bp downstream
Tssr35718	transcription start site region 35718	303 bp downstream
Tssr35719	transcription start site region 35719	546 bp downstream
Tssr35720	transcription start site region 35720	609 bp downstream
Tssr35721	transcription start site region 35721	831 bp downstream
Tssr35722	transcription start site region 35722	883 bp downstream
Tssr35723	transcription start site region 35723	942 bp downstream
Tssr35724	transcription start site region 35724	955 bp downstream
Tssr35725	transcription start site region 35725	993 bp downstream