rs256279020 SNP Detail

Summary

• ID
  rs256279020
• Variation Type
  SNP
• Alleles
  A/C

• 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
  Chr3:58597948 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              ATATTATTAG TAAACCTGGT
  TGGCAGAGGA AAAAAAAAAC ACTATCTCTG TGAGTATTAA AAAAAAGAAG CTTTCAGATA
  TAGACATGCA TGATTCCATT AATTTAGCCG TGAGGATGTA AACACAGGTC CTAAACAAAC
  CATTGGAGCC ATGGGAATGA GAGCTCGGAC TTTGACTTGT GGTTTGCCCA CCCCACCCCA
  M
  CCCCCAGCAC AGGCAACTAA ATAAAATGCT GTCACTGGAG AGAGAACTAA TAACGCTCTT
  AAGTGTCTGC GTTGAGTCCT TGTGGACTCG AGTTCATCGC AGTTAGTCAA ACAAACAAAC
  CAAAACAAAA ACCAAACAGC AGCTACAACT TCTGAGTCCT CCGCAAGTCT GGGAAGCTGA
  GAGAAGGCGT GGCTTGCTGG                                            
  
  M = A/C
  

  
  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
ss358103434	MGP_WTSI_3_58494449	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	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	A	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
rs256279020					SNP	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	C	C	C	C	A	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
ss358103434	MGP_WTSI_3_58494449	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/C

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:58597948 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi13205	CpG island 13205			205 bp proximal
Cpgi13206	CpG island 13206			727 bp proximal
Rr367441	regulatory region 367441			159 bp upstream
Rr577266	regulatory region 577266			within coordinates
Rr577267	regulatory region 577267			800 bp proximal
Rr577268	regulatory region 577268			1512 bp proximal
Rr577269	regulatory region 577269			1745 bp proximal
Rr577270	regulatory region 577270			1863 bp proximal
Siah2	siah E3 ubiquitin protein ligase 2			Intron
				Noncoding-Transcript-Variant
Tssr29217	transcription start site region 29217			1963 bp upstream
Tssr33366	transcription start site region 33366			1481 bp downstream
Tssr33367	transcription start site region 33367			1529 bp downstream
Tssr33368	transcription start site region 33368			1864 bp downstream
Tssr33369	transcription start site region 33369			1898 bp downstream