rs259086971 SNP Detail

Summary

• ID
  rs259086971
• 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
  Chr9:46142780 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              AGGCACTTTC GGAAGTCTGA
  GAACCTGAGT TCAGTGCTTA GAAGACACAC ACACACACAC ACACCCCACA AATATAAATA
  AAGGTATATA AAATATTTAA ATTTTTATTA GACTTATTTA GTGTGTGTGT GTGTGTGAGT
  GTGTGTGTGT GTGAGTGTGT GTGTGTGTGT TTTCACGTGC CACAGAACAT GTGTGGAGAT
  Y
  AGAGGACAAT TTGCAGGTAT CTGTTCTCTT TTCCACCATA TAGGTCCCAA AGATCAAAAA
  CTCAGGTCAC CAGGATTAGT GTAGCGAGCG TCTCTACTAG CTAAGCCATC TTGCCAGTTC
  TTGTTTGTAT TTATCTACTA GCTAAGCCAT CTTGCCAGTC CTTGTTTGTA TTTATTTTAT
  TTGGAGACAG TGTCTCCACT                                            
  
  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/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
ss377451249	MGP_WTSI_9_46039565	EVA_MGPV3	EVA_MGPV3	f	SNP	C	C	C	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	C	T	T	C	T	T	T	T	C	C	T	T	C	T	C	T	T	T	T	T	T	C	T	T	T	T	T	T	T	C	T	T	T	T
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/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
rs259086971					SNP	C	C	C	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	C	T	T	C	T	T	T	T	C	C	T	T	C	T	C	T	T	T	T	T	T	C	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
ss377451249	MGP_WTSI_9_46039565	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr9:46142780 () rs orientation: forward

Symbol	Name	Function Class
Apoa1	apolipoprotein A-I	1013 bp downstream
Apoc3	apolipoprotein C-III	1568 bp downstream
Cpgi21701	CpG island 21701	977 bp distal
D9Mit93	DNA segment, Chr 9, Massachusetts Institute of Technology 93	1873 bp proximal
Rr195183	regulatory region 195183	1780 bp distal
Rr206362	regulatory region 206362	379 bp distal
Tssr84847	transcription start site region 84847	1574 bp downstream
Tssr84848	transcription start site region 84848	1496 bp downstream
Tssr84849	transcription start site region 84849	1460 bp downstream
Tssr84850	transcription start site region 84850	1418 bp downstream
Tssr84851	transcription start site region 84851	1383 bp downstream
Tssr84852	transcription start site region 84852	1286 bp downstream
Tssr84853	transcription start site region 84853	1252 bp downstream
Tssr84854	transcription start site region 84854	1239 bp downstream
Tssr84855	transcription start site region 84855	1219 bp downstream
Tssr84856	transcription start site region 84856	1208 bp downstream
Tssr84857	transcription start site region 84857	1086 bp downstream
Tssr84858	transcription start site region 84858	1049 bp downstream
Tssr84859	transcription start site region 84859	1650 bp upstream
Tssr84860	transcription start site region 84860	1789 bp upstream
Tssr84861	transcription start site region 84861	1835 bp upstream
Tssr89313	transcription start site region 89313	1507 bp upstream
Tssr89314	transcription start site region 89314	1479 bp upstream
Tssr89315	transcription start site region 89315	1456 bp upstream
Tssr89316	transcription start site region 89316	1436 bp upstream
Tssr89317	transcription start site region 89317	1427 bp upstream
Tssr89318	transcription start site region 89318	1403 bp upstream
Tssr89319	transcription start site region 89319	1393 bp upstream
Tssr89320	transcription start site region 89320	1380 bp upstream
Tssr89321	transcription start site region 89321	1355 bp upstream
Tssr89322	transcription start site region 89322	1272 bp upstream
Tssr89323	transcription start site region 89323	1220 bp upstream
Tssr89324	transcription start site region 89324	1192 bp upstream
Tssr89325	transcription start site region 89325	1167 bp upstream
Tssr89326	transcription start site region 89326	1133 bp upstream
Tssr89327	transcription start site region 89327	1019 bp upstream
Tssr89328	transcription start site region 89328	1617 bp downstream
Tssr89329	transcription start site region 89329	1688 bp downstream
Tssr89330	transcription start site region 89330	1734 bp downstream
Tssr89331	transcription start site region 89331	1767 bp downstream
Tssr89332	transcription start site region 89332	1842 bp downstream