rs223542485 SNP Detail

Summary

• ID
  rs223542485
• 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
  Chr2:32126645 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CGTGAACAGC TTGTGGAAAC
  ACACTGTGCT TTATTAAAAA GGGGAAAGGG AGCCCTAAGG ATAGGACAGT CAGTATGCCC
  AACTTTGATG GCCGGTGAGC ACGCCGCGCA TGCGCGCCAC TACCTCGCGC TCCGGCTGCG
  CACGCGCGTC TCAGAGTCTG TCGGCCGCGT AGACACAACT AGTTGAGCGT CGATCCGTGG
  S
  CGCTGCAGAG TAATCGAGCG GCCTCGCCCC CAACGGTCGA TCCTGCCTGG CGGTTCGCAG
  GCCTGGCTCC ACATGGGGAG CCACTCTACG GGACTCGAAG AAACGCTCGT AGGTTTTGGA
  GTGCCAGATT TGAGAGCCCT CCTGGGGTCT GGGATCCGGC TTAGGGGCGG CGCGCTAGGG
  ACGGTGGATG TTCGGATCCT                                            
  
  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	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	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	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
ss353553916	MGP_WTSI_2_32092153	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	G	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	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	SPRET/EiJ	ST/bJ	SWR/J	WSB/EiJ	ZALENDE/EiJ
rs223542485					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	G	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
ss353553916	MGP_WTSI_2_32092153	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr2:32126645 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi11499	CpG island 11499			within coordinates
Gm13610	predicted gene 13610			145 bp upstream
Pomt1	protein-O-mannosyltransferase 1			Intron
				mRNA-UTR
Rr554847	regulatory region 554847			250 bp distal
Rr554848	regulatory region 554848			33 bp distal
Rr554849	regulatory region 554849			771 bp proximal
Tssr17254	transcription start site region 17254			38 bp downstream
Tssr17255	transcription start site region 17255			11 bp downstream
Tssr17256	transcription start site region 17256			within coordinates
Tssr17257	transcription start site region 17257			664 bp upstream
Tssr23466	transcription start site region 23466			270 bp upstream
Tssr23467	transcription start site region 23467			260 bp upstream
Tssr23468	transcription start site region 23468			240 bp upstream