rs246554389 SNP Detail

Summary

• ID
  rs246554389
• Variation Type
  SNP
• Alleles
  C/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
  Chr9:45925597 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              AAAATCATTC AGTTTTGATG
  GAAGCCACAA AACCCATTTG AATTCCCAAC TCGTCTTTGC TCAATACCTC ACTTAAATGG
  ATACTTTTAA CGTAGTAGTC ATTCCTTATA TTTAAAACAG TAGCTTGAGT TTTTCTTCCG
  CCTGGCTAAT GAAAAACCTT TACTACCTAA GCATGCTCCT CCGGGAGACC CAGGACTCCC
  S
  TCCCCTCCTC CCCCTGGCCG CTGTTTACCT TAGCCTACCT TGTTTTGGCT TTTATAGCAG
  TCCCTCCCTG CCAGGACTTA TCTGGGCCTC GTATCCTGCT TATTGGCAAC CTGAAAGTTC
  CTTTCCTTGC CTCTCTCTGT CAAAGACTAC AAGGGGCCCT TCTTCCGAGG GTGGCGGCGG
  GCAGAGTGAT TGGTCAGTTT                                            
  
  S = C/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
ss377446878	MGP_WTSI_9_45822382	EVA_MGPV3	EVA_MGPV3	f	SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	G	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C
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
rs246554389					SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	G	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C

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
ss377446878	MGP_WTSI_9_45822382	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr9:45925597 () rs orientation: forward

Symbol	Name	Function Class
Cpgi21700	CpG island 21700	694 bp distal
Pafah1b2	platelet-activating factor acetylhydrolase, isoform 1b, subunit 2	1609 bp upstream
Rr401349	regulatory region 401349	1496 bp downstream
Rr678027	regulatory region 678027	1469 bp distal
Rr678028	regulatory region 678028	1519 bp distal
Rr678029	regulatory region 678029	260 bp proximal
Sik3	SIK family kinase 3	Intron
Tssr84822	transcription start site region 84822	1478 bp downstream
Tssr84823	transcription start site region 84823	1439 bp downstream
Tssr89308	transcription start site region 89308	1606 bp upstream