rs221864945 SNP Detail

Summary

• ID
  rs221864945
• Variation Type
  SNP
• Alleles
  C/T

• 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
  Chr1:75456307 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GGAGTCCCCT GTCTCCCCCC
  TGCGTGGTTG GTGCGTCCCG GATGACGTCA GAAGCAGCCC GCCCCTGCCA GGATGGTGCA
  CCCTGAGTGA CGTCAGGAGC AGAGGCCGGA GCTGTCCATC AGCACCAAAG GCCGCCAGCG
  GGCTCAGGGC ATGGGGCCGC GGCTCCGGGA CAGCCCGAGC TCCTGCTCCT TTCCCTTCCC
  Y
  GAGCCGGGCG CGAGTCTGTG GAGCTGCAGT GCCAGCCGGT GTCGGAGGTG GGGCGACGAC
  GCCGTCGCAC AGAGACCCGT CTCTCCGGCC CAGCAGCCCC CTTCGCACGG CAGACTTTGC
  CCGGACCCCA GTCAGTCAGA GCCTCTGGTG TCCTACAACC CCGGCTCCTC CGGCCCCTGC
  ACACCCTCCT TTGCTCGGAA                                            
  
  Y = C/T
  

  
  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
ss350142740	MGP_WTSI_1_75476238	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	T	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
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
rs221864945					SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	T	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

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
ss350142740	MGP_WTSI_1_75476238	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:75456307 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Chpf	chondroitin polymerizing factor			356 bp upstream
Rr413450	regulatory region 413450			1612 bp distal
Rr413451	regulatory region 413451			946 bp distal
Rr413452	regulatory region 413452			73 bp distal
Rr413453	regulatory region 413453			28 bp proximal
Tmem198	transmembrane protein 198			Coding-Synonymous
				mRNA-UTR
Tssr7538	transcription start site region 7538			146 bp downstream
Tssr7539	transcription start site region 7539			70 bp downstream
Tssr12402	transcription start site region 12402			539 bp upstream
Tssr12403	transcription start site region 12403			521 bp upstream
Tssr12404	transcription start site region 12404			504 bp upstream
Tssr12405	transcription start site region 12405			495 bp upstream
Tssr12406	transcription start site region 12406			305 bp upstream
Tssr12407	transcription start site region 12407			259 bp upstream