rs238228039 SNP Detail

Summary

• ID
  rs238228039
• 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
  Chr3:133249718 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TGGACTTATA CTAAGAACAG
  GGGAGAGGAG GATCAAAAGA GAAAGTGGTG GTCCCCAAAG ATGAACTCTT TCAGGAAGGC
  AGCCCCAAGA AAACACTCAC TTTCCTGAGA CTAAAAGGCC AGAAGAGCGG CTGGTGGGAG
  GTACAAAGGT AAGTTTTCTG GGTACAGAGG GGAGACACGC ATTAGCAGGA AGAAGGGACC
  M
  CAGAAGTGCA GGTCGCAGGA GAAGGGGGTG CTGAATTAAA ACTATATTTG TCAGCCATGT
  TGAAGAAGCT CCTGTAATTT GTGAGGCTTC CCTCTTCCCT CTTAGTATTT GTGGGTGACA
  TGACAGTCCC CGCAAGGCCG AGAGAAAGAG AGGGAGATTG GAAAGGGACC ATTCCGCAGC
  CGTCAAGAGC GAGGAAAGAA                                            
  
  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
ss359791681	MGP_WTSI_3_133206921	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	C	A	A	C	A	A	A	A	C	A	A	A	A	A	C	A	A	A	A	A	A	C	A	A	A	A	A	A	A	C	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
rs238228039					SNP	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	A	C	A	A	C	A	A	A	A	C	A	A	A	A	A	C	A	A	A	A	A	A	C	A	A	A	A	A	A	A	C	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
ss359791681	MGP_WTSI_3_133206921	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/C

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:133249718 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Gm42567	predicted gene 42567			within coordinates
Rr398035	regulatory region 398035			1624 bp downstream
Rr585563	regulatory region 585563			1504 bp distal
Rr585564	regulatory region 585564			348 bp distal
Rr585565	regulatory region 585565			within coordinates
Rr585566	regulatory region 585566			322 bp distal
Rr585567	regulatory region 585567			401 bp proximal
Rr585568	regulatory region 585568			1129 bp proximal
Tet2	tet methylcytosine dioxygenase 2			Intron
				Noncoding-Transcript-Variant
Tssr35764	transcription start site region 35764			293 bp downstream
Tssr35765	transcription start site region 35765			311 bp downstream
Tssr35766	transcription start site region 35766			448 bp downstream
Tssr35767	transcription start site region 35767			693 bp downstream
Tssr35768	transcription start site region 35768			1172 bp downstream
Tssr35769	transcription start site region 35769			1360 bp downstream