rs229457688 SNP Detail

Summary

• ID
  rs229457688
• Variation Type
  SNP
• Alleles
  C/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
  Chr3:102111843 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GCAGGGATGG AAGGACCCGC
  GTCTCGGGGA GCTCGACCCG GAGGAACCCA GGGGTCTCCC GGTCCGAGGG CCCGGACCCC
  AGTCGGACTG CTGGGGAGCA GGGACACCCG CAGTTGGCCT GACCTCCCAC CCAGCTCAGT
  CTCGAGCCGC CGCGCCGCGC CGCGCCCGCC TCTCCCGGGA CTCACCCCGG CGCCGGCCCG
  Y
  CGCGCTCCAC GCCCGCGCTC TCGGCTGCAG CGCCCGGGCT CCGCGGCCTG CGCTGGGCTG
  CAGTGGAGGC ACAGCCCCGC CGCGGCCGCT GGTCTCTGCT GCTTTCCGCT TCCTGTCCCG
  GCGCCGCCCC GCAGCCCCAG CCCAGCCCTG CTAGCCCGGC GCGGCCGCCA GCCAAGAGCT
  GCGAGCGCTG CGGGCCCCGC                                            
  
  Y = C/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	129S1/SvImJ	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/10SnJ	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/2J	FVB/NJ	I/LnJ	JF1/MsJ	KK/HlJ	LG/J	LP/J	MA/MyJ	MOLF/EiJ	NOD/ShiLtJ	NON/ShiLtJ	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
ss359045966	MGP_WTSI_3_102008450	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	C	T	T	T	T
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	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/10SnJ	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/2J	FVB/NJ	I/LnJ	JF1/MsJ	KK/HlJ	LG/J	LP/J	MA/MyJ	MOLF/EiJ	NOD/ShiLtJ	NON/ShiLtJ	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
rs229457688					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	C	T	T	T	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
ss359045966	MGP_WTSI_3_102008450	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:102111843 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi13625	CpG island 13625			within coordinates
Gm16160	predicted gene 16160			within coordinates
Rr582207	regulatory region 582207			575 bp distal
Rr582208	regulatory region 582208			472 bp distal
Rr582209	regulatory region 582209			within coordinates
Rr582210	regulatory region 582210			156 bp proximal
Tssr34830	transcription start site region 34830			49 bp downstream
Vangl1	VANGL planar cell polarity 1			mRNA-UTR
				Noncoding-Transcript-Variant