rs239479796 SNP Detail

Summary

• ID
  rs239479796
• 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
  Chr1:152779258 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GGAATAGGGC GGAGCCCAGG
  GAGAAATAGA AAGGAAAACC AATCCGATTG GGCAGGCCGC TGCCATGGAA ACTGGAGGCT
  GTGGTTGTAT TGTCATAGTA ACTGCCGTGT GTAGACAGGG TGACCCTCCC GTAGAGAAAC
  GGGTTCCCTG GAAACTGCCC AGGATTCCCC ACTTGGATTC CCTGCCTTTT TAAAAGCCAG
  R
  AGTCGAAATG GTTATCCGAG TAGGAAAGTC CATTTCTTCC TCCCTTACTC TCCCAGCAAA
  AATTGGGGGA GACCCCGAAG CATTCATTTT AGGCATTGCC AGTCCCCCAA GGGTGGAAAC
  CACCTCCATC GTTGCCTATC TGAGCCGGGT AGGGAGAGGG CCGGGCCCGA GAAGAAAAGG
  CAGGTTATGA AGGCCGGCGG                                            
  
  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
ss351959064	MGP_WTSI_1_154750637	EVA_MGPV3	EVA_MGPV3	f	SNP	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	G	A	A	A	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
rs239479796					SNP	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	G	A	A	A	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
ss351959064	MGP_WTSI_1_154750637	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:152779258 () rs orientation: forward

Symbol	Name	Function Class
Cpgi860	CpG island 860	within coordinates
Cpgi861	CpG island 861	1179 bp proximal
D1Mit502	DNA Segment, Chr 1 Massachusetts Institute of Technology 502	1746 bp distal
Gm70930	predicted gene, 70930	550 bp upstream
Rr396386	regulatory region 396386	880 bp downstream
Rr396387	regulatory region 396387	74 bp downstream
Rr396388	regulatory region 396388	1026 bp upstream
Rr420557	regulatory region 420557	896 bp distal
Rr420558	regulatory region 420558	371 bp distal
Rr420559	regulatory region 420559	60 bp proximal
Rr420560	regulatory region 420560	561 bp proximal
Smg7	SMG7 nonsense mediated mRNA decay factor	861 bp upstream
Tssr9437	transcription start site region 9437	634 bp downstream
Tssr9438	transcription start site region 9438	585 bp downstream
Tssr9439	transcription start site region 9439	296 bp upstream
Tssr14242	transcription start site region 14242	838 bp upstream
Tssr14243	transcription start site region 14243	757 bp upstream
Tssr14244	transcription start site region 14244	728 bp upstream
Tssr14245	transcription start site region 14245	420 bp upstream
Tssr14246	transcription start site region 14246	389 bp upstream