rs216466354 SNP Detail

Summary

• ID
  rs216466354
• 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
  Chr6:42564450 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TATTGCAAAA TTTGAAAGCT
  GCTGTGTAAT TTAATCTCTA CCTTACAAAA GAATTAAGAT GATTCTAATA ACGGGGGTGG
  TCCCTAAAAT TGAATCTTGA ATCATTAGGG CTTTTCGGTT GCATCACATA AATATTCTTC
  TCCCAGAGAG AAGAGATAGT GTGTGTTCAC TCTCTGCCTT CTGTACCTTC AGCTGTATAC
  M
  TTTTCATGGG GTTTTCCTGC CACTCTGGCA AAGAGGCTAG GCTTTTAGCC ACAGCATATT
  TGACAGGCCA GCCCCAGGCT TCAAAGAAAG GTGCCAGATT CTTATGCACA GCCTCAGAGA
  ACTTCTTCAC CCACAGATTC ATCTTGTCTT CATTGTTTTG AGGAAGGCCA GAGAGGGTTC
  GGTAGTCAGC AAAGACCTGG                                            
  
  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
ss368091203	MGP_WTSI_6_42537515	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	A	C	C	A	C	C	C	C	A	C	C	C	C	C	A	C	C	C	C	C	C	A	C	C	C	C	C	C	C	A	C	C	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
rs216466354					SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	C	A	C	C	A	C	C	C	C	A	C	C	C	C	C	A	C	C	C	C	C	C	A	C	C	C	C	C	C	C	A	C	C	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
ss368091203	MGP_WTSI_6_42537515	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/C

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr6:42564450 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Tcaf3	TRPM8 channel-associated factor 3			Coding-NonSynonymous
				Noncoding-Transcript-Variant
				Splice-Site
Tssr56048	transcription start site region 56048			1545 bp downstream
Tssr56049	transcription start site region 56049			1471 bp downstream
Tssr60620	transcription start site region 60620			1763 bp upstream
Tssr60621	transcription start site region 60621			1743 bp upstream
Tssr60622	transcription start site region 60622			1684 bp upstream
Tssr60623	transcription start site region 60623			1635 bp upstream
Tssr60624	transcription start site region 60624			1608 bp upstream
Tssr60625	transcription start site region 60625			1535 bp upstream
Tssr60626	transcription start site region 60626			1519 bp upstream
Tssr60627	transcription start site region 60627			1510 bp upstream
Tssr60628	transcription start site region 60628			1344 bp upstream
Tssr60629	transcription start site region 60629			1304 bp upstream
Tssr60630	transcription start site region 60630			1236 bp upstream
Tssr60631	transcription start site region 60631			1194 bp upstream
Tssr60632	transcription start site region 60632			1148 bp upstream
Tssr60633	transcription start site region 60633			1118 bp upstream
Tssr60634	transcription start site region 60634			1109 bp upstream
Tssr60635	transcription start site region 60635			1037 bp upstream
Tssr60636	transcription start site region 60636			938 bp upstream
Tssr60637	transcription start site region 60637			674 bp upstream
Tssr60638	transcription start site region 60638			631 bp upstream
Tssr60639	transcription start site region 60639			579 bp upstream
Tssr60640	transcription start site region 60640			333 bp upstream