rs247473538 SNP Detail

Summary

• ID
  rs247473538
• Variation Type
  SNP
• Alleles
  A/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
  Chr2:79957566 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              AATCCACTGT CAACTCAGAA
  GCTCTGCTGC TGAGAGACCT CATCACCCCT CTTAGAAACG GCCATCAAAC GACAAGGTGA
  AAAGTTAGAG AACTTTTCTC AAAAATGTTG AGTAAACACG GAATCAATTT TCTAGTTGTT
  TGAAGACATA TTTCTAACGT CACTACGGGG TATCTTTTTG CCTCGGAGTA ACTAAGGAAA
  W
  ACAATATACC AAGAGCAAAC AAAACATCCT GTCCTGTAAA GGAAGAATCT AAATGGGTTG
  TGATCTCAGT TATAGCAGCC CAGTACAGAT GTTCATCCAC TAGGTTAGAG CACAAATCAT
  CTGGTAATTG CTGATGCTTA ATTTGCATCT ATGCTAATTA ATTGTGTGAA CCACTATTTG
  TTTCGACAGG ATTATTTGTT                                            
  
  W = A/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
ss354604712	MGP_WTSI_2_79967379	EVA_MGPV3	EVA_MGPV3	f	SNP	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	T	A	A	T	A	A	T	A	A	A	A	T	A	A	A	A	A	T	A	A	A	A	A	A	T	A	A	A	A	A	A	A	A	A	A	A	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/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
rs247473538					SNP	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	T	A	A	T	A	A	T	A	A	A	A	T	A	A	A	A	A	T	A	A	A	A	A	A	T	A	A	A	A	A	A	A	A	A	A	A	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
ss354604712	MGP_WTSI_2_79967379	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr2:79957566 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi11847	CpG island 11847			1736 bp proximal
Pde1a	phosphodiesterase 1A, calmodulin-dependent			Intron
				Noncoding-Transcript-Variant
Rr373421	regulatory region 373421			17 bp downstream
Rr560060	regulatory region 560060			164 bp distal
Rr560061	regulatory region 560061			1707 bp proximal
Tssr24917	transcription start site region 24917			1718 bp downstream
Tssr24918	transcription start site region 24918			1791 bp downstream
Tssr24919	transcription start site region 24919			1895 bp downstream
Tssr24920	transcription start site region 24920			1938 bp downstream
Tssr24921	transcription start site region 24921			1961 bp downstream
Tssr24922	transcription start site region 24922			1995 bp downstream