rs257220624 SNP Detail

Summary

• ID
  rs257220624
• 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
  Chr3:58599232 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              ACACCGGGTC GGCCCCGCCG
  CCGGCTCCGG GGCCTGAGAT CACCGCTGCC GCGGCGGGCA CCGCGGACGA GCCGGGGCCC
  GCTGCCGAGA TGGTGGCGGC GGCCGGGGGC GCAGCCGGGG ACGGGGCGTG CGGGGTCTGA
  GGCGGCGGCG GCTGCTTGCT GCAGGGTTTG TTAGCGCTGG GGCCGGTGGA GGACGGGCGG
  Y
  TCATCGCGCT CCGAGCCCAC CATGGACCTG CGGGCGTCTG CCTGCCGCGG GGCCGCCCGG
  GTTAAGGCGG TGCGCGCCCC GCGGGTGGCG GGCTCCGGGG CAACGCCACG GCGCCCAGCC
  CGGGGGACCC AGCGCGGACC CGACCGGCAC CGGGAGGGCG GGGACCGGAC CGCGCCGATC
  CTCTCGGCGG CACCCGGATG                                            
  
  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/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10SnJ	C57L/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	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
ss358103448	MGP_WTSI_3_58495733	EVA_MGPV3	EVA_MGPV3	f	SNP	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	C	C	C	C	C	C	C	C	C	C	C
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/HeJ	C57BL/6J	C57BL/6NJ	C57BL/10SnJ	C57L/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	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
rs257220624					SNP	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	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
ss358103448	MGP_WTSI_3_58495733	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:58599232 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
4930593A02Rik	RIKEN cDNA 4930593A02 gene			778 bp upstream
Cpgi13205	CpG island 13205			819 bp distal
Cpgi13206	CpG island 13206			within coordinates
Rr367441	regulatory region 367441			1016 bp downstream
Rr577266	regulatory region 577266			922 bp distal
Rr577267	regulatory region 577267			463 bp distal
Rr577268	regulatory region 577268			228 bp proximal
Rr577269	regulatory region 577269			461 bp proximal
Rr577270	regulatory region 577270			579 bp proximal
Rr577271	regulatory region 577271			820 bp proximal
Siah2	siah E3 ubiquitin protein ligase 2			Coding-NonSynonymous
				Noncoding-Transcript-Variant
Tssr29217	transcription start site region 29217			679 bp upstream
Tssr29218	transcription start site region 29218			800 bp upstream
Tssr33366	transcription start site region 33366			197 bp downstream
Tssr33367	transcription start site region 33367			245 bp downstream
Tssr33368	transcription start site region 33368			580 bp downstream
Tssr33369	transcription start site region 33369			614 bp downstream