rs239442569 SNP Detail

Summary

• ID
  rs239442569
• Variation Type
  SNP
• Alleles
  G/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
  Chr6:57512245 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GCAGCCACCG TGGGCCTAGG
  CGAGAGCAGC TGCTTTCCAC TTCCAGAAAA AGGGAGCACA TCGAACCCAG AGAGATGCGC
  GTGGGACTCG GTCTCAGACA GAGTAAGCTG CAGGAACTCA TTTCATATTT CTCTTTCGCC
  TTCCCGGGGA CCTCCGGAGA CCGCCAATGT CTCGTCAACA ACCTAGGAGA ATAAGCGAAT
  K
  AAACTCCTTA GGCTCTTACC TTGTGATGGG TAGGTGTCTG TAAATTTCTT AATTGGCTAA
  TGGAAGGAAG GGAAGGATTT CTTGGATGAT AAACTAGACT GACTTCTCTG TTGATTATGA
  TCTCCAGAAC AAGCAATTAG GGAAGCCACA GTCTCTTCCA CTCCTGGAAA TTCTCGGAAA
  ATAAAAAAAA ATCAACCGCA                                            
  
  K = G/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
ss368432477	MGP_WTSI_6_57485254	EVA_MGPV3	EVA_MGPV3	f	SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	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	SM/J	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ
rs239442569					SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	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
ss368432477	MGP_WTSI_6_57485254	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	G/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr6:57512245 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi17483	CpG island 17483			within coordinates
Cpgi17484	CpG island 17484			271 bp proximal
Gm45193	predicted gene 45193			within coordinates
Ppm1k	protein phosphatase 1K (PP2C domain containing)			Intron
				Noncoding-Transcript-Variant
Rr399669	regulatory region 399669			157 bp upstream
Rr631141	regulatory region 631141			within coordinates
Rr631142	regulatory region 631142			156 bp proximal
Tssr61156	transcription start site region 61156			108 bp downstream
Tssr61157	transcription start site region 61157			150 bp downstream
Tssr61158	transcription start site region 61158			162 bp downstream
Tssr61159	transcription start site region 61159			217 bp downstream
Tssr61160	transcription start site region 61160			239 bp downstream