rs258691003 SNP Detail

Summary

• ID
  rs258691003
• Variation Type
  SNP
• Alleles
  A/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
  Chr6:42564260 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TATTTGCACA TTAATTTTAG
  GAATAGCAAA ACAATATATG TGGAGCCAAT CGAAGATAGT TCTTCATTTA AGACCCTGGA
  TTTGGGGAGC TTTTGTAAAC AAACAGAACA TGAAAGATGC TAAACAAGAA GGTCAAGATA
  CAAATCTCAC AGTTTAAGAT TAATCTAGAG GCAATATATT GAGTCATCTA TATTGCAAAA
  W
  TTGAAAGCTG CTGTGTAATT TAATCTCTAC CTTACAAAAG AATTAAGATG ATTCTAATAA
  CGGGGGTGGT CCCTAAAATT GAATCTTGAA TCATTAGGGC TTTTCGGTTG CATCACATAA
  ATATTCTTCT CCCAGAGAGA AGAGATAGTG TGTGTTCACT CTCTGCCTTC TGTACCTTCA
  GCTGTATACC TTTTCATGGG                                            
  
  W = A/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
ss368091199	MGP_WTSI_6_42537325	EVA_MGPV3	EVA_MGPV3	f	SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	A	T	T	T	T
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
rs258691003					SNP	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	T	A	T	T	T	T

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
ss368091199	MGP_WTSI_6_42537325	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	A/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr6:42564260 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Tcaf3	TRPM8 channel-associated factor 3			Intron
				mRNA-UTR
				Noncoding-Transcript-Variant
Tssr56047	transcription start site region 56047			1951 bp downstream
Tssr56048	transcription start site region 56048			1355 bp downstream
Tssr56049	transcription start site region 56049			1281 bp downstream
Tssr60620	transcription start site region 60620			1573 bp upstream
Tssr60621	transcription start site region 60621			1553 bp upstream
Tssr60622	transcription start site region 60622			1494 bp upstream
Tssr60623	transcription start site region 60623			1445 bp upstream
Tssr60624	transcription start site region 60624			1418 bp upstream
Tssr60625	transcription start site region 60625			1345 bp upstream
Tssr60626	transcription start site region 60626			1329 bp upstream
Tssr60627	transcription start site region 60627			1320 bp upstream
Tssr60628	transcription start site region 60628			1154 bp upstream
Tssr60629	transcription start site region 60629			1114 bp upstream
Tssr60630	transcription start site region 60630			1046 bp upstream
Tssr60631	transcription start site region 60631			1004 bp upstream
Tssr60632	transcription start site region 60632			958 bp upstream
Tssr60633	transcription start site region 60633			928 bp upstream
Tssr60634	transcription start site region 60634			919 bp upstream
Tssr60635	transcription start site region 60635			847 bp upstream
Tssr60636	transcription start site region 60636			748 bp upstream
Tssr60637	transcription start site region 60637			484 bp upstream
Tssr60638	transcription start site region 60638			441 bp upstream
Tssr60639	transcription start site region 60639			389 bp upstream
Tssr60640	transcription start site region 60640			143 bp upstream