rs238988426 SNP Detail

Summary

• ID
  rs238988426
• 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
  Chr3:40754463 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TCTGCGGGAA GCCAAAGCCC
  TATTATCCTT CAGGTCAAAA CGTAACCTAT TATTAGCGTC CGCGCTACGG TCAGTCGTAC
  ACTGACCGCT TTCCGTCAAA CTTAAAACCC ACTTCCGGCC TAGAGCGAGG GAAAGCCCCT
  GCTGCGCATG CGTGTCGGTC TCCGCCTCTA AGAAGTGGAG AGTGTGCTGA CGTCACCGCC
  R
  GGCTGGCTCG TTCGGAGACC GGCGGGAATT TTTCAAAATG GGAGCTCCGG GGCGCCGCCC
  AGGCCTCGGG AGGTACCGGG GGTACCTTTC GGTGGCGTTG GCGGCGTCGC CAGCGGCGGC
  GTAGAGAAGG CGTCCTGATG GGCGCCAAGA CCTGCTGGCT TCTCGGAGCG CTGCCTCGGA
  GGGACTGCGA GAAGGCCGAG                                            
  
  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	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
ss357669187	MGP_WTSI_3_40603950	EVA_MGPV3	EVA_MGPV3	f	SNP	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	G	A	A	A	A
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
rs238988426					SNP	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	G	A	A	A	A

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
ss357669187	MGP_WTSI_3_40603950	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:40754463 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
4921509J17Rik	RIKEN cDNA 4921509J17 gene			1564 bp downstream
Cpgi13112	CpG island 13112			within coordinates
Plk4	polo like kinase 4			mRNA-UTR
				Noncoding-Transcript-Variant
Rr397650	regulatory region 397650			1345 bp downstream
Rr575856	regulatory region 575856			1017 bp distal
Rr575857	regulatory region 575857			1341 bp distal
Rr575858	regulatory region 575858			within coordinates
Rr575859	regulatory region 575859			81 bp proximal
Tssr28972	transcription start site region 28972			within coordinates
Tssr28973	transcription start site region 28973			29 bp upstream
Tssr28974	transcription start site region 28974			750 bp upstream