rs259543560 SNP Detail

Summary

• ID
  rs259543560
• Variation Type
  SNP
• Alleles
  A/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
  Chr3:68599452 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GGTCAGTACC CAGAATGGAT
  GGAAAAAATT GCCAGAATGG CTGAAGAAAG AGGCAGGTCA AAACCAAGTT GACAAGCTCC
  ACCTGCCCTT TGTTTCCCTT CCAGACCTCC TCTTTTTGGC CACCCTTGCC CTCCTAAACC
  ACCTCAGTTT GGCCAGGGTC ATTCCAGTCT CTGGACCTGC CAGGTGTCTT AGCCAGTCCC
  R
  AAACCTGCTG AAGACCACAG ATGACATGGT GAAGACGGTG AGTTTCTCCT GTCCTTCTGG
  CTTCAAAGTT CCGCTGTTGA CATGACTTCT AACCTATCTG GTATCTGCTG GGAAGTTTAT
  GGTATCTGGC AGGAACCGTA GAGGGTTTCA AGACTTCTAA ATATAATCTA AAGGAAACTG
  TGTCTCTAGA GAAAGGAAGA                                            
  
  R = A/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/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
ss358306648	MGP_WTSI_3_68496041	EVA_MGPV3	EVA_MGPV3	f	SNP	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	A	G	G	G	G	G	G	G	A	G	G	G	G	G	G	G	G	G	G	G	G	G	G	A	G	G	G	A	G	G	G	A
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
rs259543560					SNP	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	A	G	G	G	G	G	G	G	A	G	G	G	G	G	G	G	G	G	G	G	G	G	G	A	G	G	G	A	G	G	G	A

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
ss358306648	MGP_WTSI_3_68496041	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:68599452 () rs orientation: forward

Symbol	Name	Function Class
Cpgi13252	CpG island 13252	669 bp distal
Gm66274	predicted gene, 66274	1250 bp upstream
Il12a	interleukin 12a	within coordinates
Rr578059	regulatory region 578059	757 bp distal
Rr578060	regulatory region 578060	446 bp proximal
Tssr29479	transcription start site region 29479	756 bp downstream
Tssr29480	transcription start site region 29480	749 bp downstream
Tssr29481	transcription start site region 29481	708 bp downstream
Tssr29482	transcription start site region 29482	681 bp downstream
Tssr29483	transcription start site region 29483	608 bp downstream
Tssr29484	transcription start site region 29484	469 bp downstream
Tssr29485	transcription start site region 29485	184 bp downstream
Tssr29486	transcription start site region 29486	162 bp downstream
Tssr29487	transcription start site region 29487	50 bp downstream
Tssr29488	transcription start site region 29488	32 bp downstream
Tssr29489	transcription start site region 29489	1574 bp upstream
Tssr29490	transcription start site region 29490	1620 bp upstream
Tssr29491	transcription start site region 29491	1911 bp upstream
Tssr29492	transcription start site region 29492	1959 bp upstream
Tssr29493	transcription start site region 29493	1976 bp upstream
Tssr33509	transcription start site region 33509	85 bp downstream