rs225682501 SNP Detail

Summary

• ID
  rs225682501
• 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
  Chr18:37857218 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              AGCATTTGGG AGGTAAGGCA
  AGGCCAGCCC AGGCTATATG AGACCCTTTC TAAACAAACA AAAGCCCAGA AGGTCAAAAG
  CAGATTGATG TTCCTTGAAG CATAGGTTTT TGAGACTTTA ACTGTACAGA GGTTCATACA
  ATAGGCCCCA CCACTGAAGA AGAGATGAAA AATGCCTTCC CTCTGTTTCT CCCTGAAACA
  M
  TCCAATATAT AATTTTTAAA ATTAGCAGTA GTAGCTGGTC AGTGGTGGCT CACACCTTTA
  ATCCTAGCAC TTGGGAGCCA AAAGTAGGCA GATCTCTGAG TTTGAGTGTG GCCTGGACTT
  TGAATGTTCG GAGTTTTGTT TGTTTGTTTG TTTGTCTTTT CCTTTCATCT TTTCCAAGGA
  TATAGCTCAT GTCACAAGGC                                            
  
  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
ss400303172	MGP_WTSI_18_37883819	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	A	C	C	C	C	C	C	C	C	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
rs225682501					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	A	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
ss400303172	MGP_WTSI_18_37883819	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/C

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr18:37857218 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi9936	CpG island 9936			1423 bp distal
Cpgi9937	CpG island 9937			1576 bp proximal
Gm37165	predicted gene, 37165			within coordinates
Gm37388	predicted gene, 37388			Intron
Gm38666	predicted gene, 38666			Intron
Gm38667	predicted gene, 38667			Intron
Gm53048	predicted gene, 53048			within coordinates
Pcdha4b	protocadherin alpha 4B			Intron
Pcdhga1	protocadherin gamma subfamily A, 1			Intron
Pcdhga2	protocadherin gamma subfamily A, 2			Intron
Pcdhga3	protocadherin gamma subfamily A, 3			Intron
Pcdhga4	protocadherin gamma subfamily A, 4			Intron
Pcdhga5	protocadherin gamma subfamily A, 5			Intron
Pcdhga6	protocadherin gamma subfamily A, 6			Intron
Pcdhga7	protocadherin gamma subfamily A, 7			Intron
Pcdhga8	protocadherin gamma subfamily A, 8			1541 bp upstream
Pcdhgb1	protocadherin gamma subfamily B, 1			Intron
Pcdhgb2	protocadherin gamma subfamily B, 2			Intron
Pcdhgb4	protocadherin gamma subfamily B, 4			Intron
				Noncoding-Transcript-Variant
Rr536311	regulatory region 536311			1405 bp proximal
Tssr150727	transcription start site region 150727			1556 bp upstream