rs238801171 SNP Detail

Summary

• ID
  rs238801171
• Variation Type
  SNP
• Alleles
  C/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
  Chr2:74535503 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              ACCGGGGCGG CAGCCTCGGC
  GGCGGCGGCG ACAGCGCTGG GAGGGGGCGG CGGGGGGGAG GGCTGAGGTG AGAGGTGGCA
  CCGGGCAGAG GGTGTGTTCT CTTTTCGTCT CCCTGCAGAG CGGGGGCTCG GCAGCCCCAG
  CCTAAGCGTC TCCCCCGTGG GCCGCGCGCA CTCTTTTTTT TTTTTTTTTT CCCCTGGTCC
  S
  GGTGCGCTAG GGCCGCCTGG AGCCGGAGAG GAAACTGGAG GCCGCGGGGC AGGTCGCCCG
  GGCGTCCGCG GTTCCACTGC GGCCCAGCAG GCGCGCGCCG GGAGAGGCCC GCGGGGCGGA
  GGCGGCGGCA GCAGCGCGCG GGGGCGGGCG AGGCCGCGTG GCCCGCGAGG GAGGCGGCGC
  GAGGCCGAGA CGGAGGCGCG                                            
  
  S = C/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	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/10J	C57BL/10SnJ	C57L/J	C58/J	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/1J	DBA/2J	FVB/NJ	I/LnJ	JF1/MsJ	KK/HlJ	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
ss354485024	MGP_WTSI_2_74543216	EVA_MGPV3	EVA_MGPV3	f	SNP	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	C	G	G	C	G	G	G	G	C	G	G	G	C	G	G	G	G	G	C	G	G	G	G	G	G	G	C	G	G	G
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/10J	C57BL/10SnJ	C57L/J	C58/J	CAST/EiJ	CBA/J	CE/J	CZECHII/EiJ	DBA/1J	DBA/2J	FVB/NJ	I/LnJ	JF1/MsJ	KK/HlJ	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
rs238801171					SNP	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	C	G	G	C	G	G	G	G	C	G	G	G	C	G	G	G	G	G	C	G	G	G	G	G	G	G	C	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
ss354485024	MGP_WTSI_2_74543216	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr2:74535503 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi11800	CpG island 11800			within coordinates
Gm38462	predicted gene, 38462			within coordinates
Gm75671	predicted gene, 75671			1721 bp downstream
Hoxd8	homeobox D8			Intron
				mRNA-UTR
Igs15	intergenic site 15			within coordinates
Rr559363	regulatory region 559363			910 bp distal
Rr559364	regulatory region 559364			534 bp distal
Rr559365	regulatory region 559365			413 bp distal
Rr559366	regulatory region 559366			408 bp distal
Rr559367	regulatory region 559367			within coordinates
Rr559368	regulatory region 559368			1202 bp proximal
Tssr18420	transcription start site region 18420			614 bp downstream
Tssr18421	transcription start site region 18421			511 bp downstream
Tssr18422	transcription start site region 18422			322 bp downstream
Tssr18423	transcription start site region 18423			245 bp downstream
Tssr18424	transcription start site region 18424			230 bp downstream
Tssr18425	transcription start site region 18425			81 bp downstream
Tssr18426	transcription start site region 18426			58 bp downstream
Tssr18427	transcription start site region 18427			3 bp downstream
Tssr18428	transcription start site region 18428			19 bp upstream
Tssr18429	transcription start site region 18429			181 bp upstream
Tssr18430	transcription start site region 18430			579 bp upstream
Tssr24623	transcription start site region 24623			656 bp downstream