rs229759546 SNP Detail

Summary

• ID
  rs229759546
• 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
  Chr6:119307674 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GATGCTCAGA CCAGGTAGCC
  GGACACACGG GCAGCTTGGC AGGCAGAACG CAGGGATGTC CGGTCTGGTT CAGGGCAGCG
  GGAGACTGGG CAGCGCCTGT GAAGGAGGCG GACCCGCAGG CTGAGCTGCC GCTGCCGGGG
  AGGGGGCTGC GGGGTCAGCG ACAAACTGAA GCGAAAGAGG GAGGGCGGGA GGAAGACAGA
  Y
  CGAAGAGGGG GAGAGGTAGA AGGATCAGAG CGCGCGTGCT CAACAGCAAG CAAGCAGAGG
  GAGGAGAGCG CGCAGCGGAG TGACAGCTGG GGCGCATCTG CGATGGCGGG CGCGCGCACC
  GGCCTCCGAA GCTCTGTGGC AGCAGGAGAG CGTTTGTGGG TGAATCTCCG CTGCCCCAGA
  CTACAGGTAC TACAGGTACC                                            
  
  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	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
ss369844576	MGP_WTSI_6_119280731	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	T	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
rs229759546					SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	T	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
ss369844576	MGP_WTSI_6_119280731	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr6:119307674 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cacna2d4	calcium channel, voltage-dependent, alpha 2/delta subunit 4			Intron
				Noncoding-Transcript-Variant
Cpgi17908	CpG island 17908			within coordinates
Lrtm2	leucine-rich repeats and transmembrane domains 2			Intron
				mRNA-UTR
				Noncoding-Transcript-Variant
				Noncoding-Transcript-Variant
Rr637632	regulatory region 637632			1520 bp distal
Rr637633	regulatory region 637633			1019 bp distal
Rr637634	regulatory region 637634			1423 bp distal
Rr637635	regulatory region 637635			34 bp proximal
Rr637636	regulatory region 637636			1387 bp proximal
Tssr62703	transcription start site region 62703			130 bp upstream
Tssr62704	transcription start site region 62704			106 bp upstream
Tssr62705	transcription start site region 62705			19 bp upstream
Tssr62706	transcription start site region 62706			1 bp upstream
Tssr62707	transcription start site region 62707			10 bp downstream
Tssr62708	transcription start site region 62708			93 bp downstream