rs258005369 SNP Detail

Summary

• ID
  rs258005369
• 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
  Chr3:131195147 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GAAGGAAGCT GGCATTTACC
  TAAGCCAACT GGAACTTGCT ATTATTTACA GGTCAAGAGT TAAAATTTAT TGAAGTTTGC
  TTTGATGAAA GAGGTTTACG TTCAGACTTT TGTACTTTCC AGCCTTAATT ACTAACCTCA
  TTAATCCTTA CTTAATCGTT GCTATTGTCT AAGGTAGTCC TAATGCCATT TTTACCTGTT
  Y
  GGGATGGTTA ACATAACCGA GGTGAAACCA AAGAACTGAA CAGTTAAAGG ATTCAAAGTT
  CACGCGAACA CACTGACAAA AAGAGTTGAG CCTCTTCAGT ATTTCAAACA CATGTCAAAA
  TAATTTAAGG TCATTTTAGA AATAAGCAAG TCTTGGAAAT AGAGGAACGG CGGATTAATA
  AAAGATTACA GGATATAGCA                                            
  
  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	SM/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
ss359739285	MGP_WTSI_3_131152350	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	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	SM/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
rs258005369					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	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
ss359739285	MGP_WTSI_3_131152350	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:131195147 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi13839	CpG island 13839			226 bp proximal
Gm36753	predicted gene, 36753			930 bp upstream
Rr585350	regulatory region 585350			495 bp distal
Rr585351	regulatory region 585351			506 bp proximal
Rr585352	regulatory region 585352			1019 bp proximal
Rr585353	regulatory region 585353			1279 bp proximal
Sgms2	sphingomyelin synthase 2			Intron
				Noncoding-Transcript-Variant
Tssr1055	transcription start site region 1055			326 bp upstream
Tssr1056	transcription start site region 1056			619 bp upstream
Tssr31735	transcription start site region 31735			351 bp upstream
Tssr31736	transcription start site region 31736			965 bp upstream
Tssr35707	transcription start site region 35707			365 bp upstream
Tssr35708	transcription start site region 35708			336 bp upstream
Tssr35709	transcription start site region 35709			361 bp downstream
Tssr35710	transcription start site region 35710			377 bp downstream
Tssr35711	transcription start site region 35711			525 bp downstream
Tssr35712	transcription start site region 35712			551 bp downstream
Tssr35713	transcription start site region 35713			792 bp downstream
Tssr35714	transcription start site region 35714			1066 bp downstream
Tssr35715	transcription start site region 35715			1124 bp downstream
Tssr35716	transcription start site region 35716			1267 bp downstream
Tssr35717	transcription start site region 35717			1343 bp downstream
Tssr35718	transcription start site region 35718			1361 bp downstream
Tssr35719	transcription start site region 35719			1604 bp downstream
Tssr35720	transcription start site region 35720			1667 bp downstream
Tssr35721	transcription start site region 35721			1889 bp downstream
Tssr35722	transcription start site region 35722			1941 bp downstream
Tssr35723	transcription start site region 35723			2000 bp downstream