rs239524277 SNP Detail

Summary

• ID
  rs239524277
• 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 | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr3:88995376 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CCCCACCGGA GAAGAGGGAA
  GCCCTCAGTG CCTCCAGAGG CATAGACCCG AGAAGCCTGG GTCAGCTGAT CCCACCAACT
  GCCTGCTGGA GGGCGTGCTG AAGGGGTTGA AGAGTCTGTA GTGCTCTCCC CTGAAGTCCC
  TCGGAGACTC TGAGCCAAAC GTTCCCCCCA GTGCAGCACA GCCTGCATAG TCTGCTGGAG
  R
  GCGGGAGGGG GGCATGAAGG GGCAGGAGCC TGCTGCAGGC CCACGGGTAG GTGGTGGTGG
  TGCTCAAAGA GCAGGTCCAG GTGGAAGGTG AGCACCGACA GTGGCTGCAG CAGAAGCAGC
  AGCTCTGTAG CCAGGGATGG ACAGCTACCA CGAGCCAGGG AGAAGAATCC GGTGGGCAGA
  TACAAGAGGG ACAGTAGGCC                                            
  
  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	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
ss358806268	MGP_WTSI_3_88891991	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	G	G	G	G	G	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
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
rs239524277					SNP	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	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

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
ss358806268	MGP_WTSI_3_88891991	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:88995376 () rs orientation: forward

Symbol	Name	Function Class
Cpgi13395	CpG island 13395	237 bp distal
Cpgi13396	CpG island 13396	1559 bp proximal
Gm65858	predicted gene, 65858	692 bp upstream
Rr397780	regulatory region 397780	1847 bp upstream
Rr579941	regulatory region 579941	397 bp distal
Rr579942	regulatory region 579942	605 bp proximal
Rr579943	regulatory region 579943	1966 bp proximal
Rusc1	RUN and SH3 domain containing 1	Coding-Synonymous
Tssr30034	transcription start site region 30034	699 bp upstream
Tssr34080	transcription start site region 34080	1591 bp downstream
Tssr34081	transcription start site region 34081	1630 bp downstream
Tssr34082	transcription start site region 34082	1679 bp downstream
Tssr34083	transcription start site region 34083	1785 bp downstream
Tssr34084	transcription start site region 34084	1886 bp downstream