rs229488002 SNP Detail

Summary

• ID
  rs229488002
• Variation Type
  SNP
• Alleles
  A/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
  Chr3:28318060 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GTGTTTTTTC CTTTTTTTCC
  AATGGTCTAG GGCTGAAAGA GGGAACGTTC CCTGCCTTTC TGTTCTAATT CCGGGGCAGC
  CGAGGGGTTC TAGGCTGAGC CCCTACCCCT ACAGCAGGGG CTGGGCTCCC CTTGTGCTCC
  TAGGCTGTTC CCGAGGTTCC GCAAGGAAGC TGGTAGAGCT TGTCAGTTTC ATCTTCGATC
  R
  GTGTAAGAGC ATTACATGAA AGGCTGGTGT GTGTGTGTGT GTGTGTGTGT GTGTGTGTGT
  GTGTGTGTGT GTGTGTACCC GGGCAACCGT CTCGTGCCAA GGCGCGAGAC CCGACTGCTC
  CTTGCTGCAA AAGATTCTCT TGGAGAAGAA AGGCACTGGC CCTTCACGTT TGCCAGCTAC
  CTGCAAGATG CCATCGTGAG                                            
  
  R = A/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	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
ss357366070	MGP_WTSI_3_28162833	EVA_MGPV3	EVA_MGPV3	f	SNP	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	A	G	G	G	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	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
rs229488002					SNP	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	A	G	G	G	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
ss357366070	MGP_WTSI_3_28162833	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:28318060 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi13025	CpG island 13025			within coordinates
Gm54170	predicted gene, 54170			within coordinates
Gm56802	predicted gene, 56802			within coordinates
Rr574555	regulatory region 574555			258 bp distal
Rr574556	regulatory region 574556			within coordinates
Rr574557	regulatory region 574557			294 bp proximal
Rr574558	regulatory region 574558			1317 bp proximal
Tnik	TRAF2 and NCK interacting kinase			Intron
				Noncoding-Transcript-Variant
Tssr28643	transcription start site region 28643			697 bp downstream
Tssr28644	transcription start site region 28644			578 bp downstream
Tssr28645	transcription start site region 28645			525 bp downstream
Tssr28646	transcription start site region 28646			498 bp downstream
Tssr28647	transcription start site region 28647			483 bp downstream
Tssr28648	transcription start site region 28648			474 bp downstream
Tssr28649	transcription start site region 28649			334 bp downstream
Tssr32865	transcription start site region 32865			324 bp downstream
Tssr32866	transcription start site region 32866			1319 bp downstream