rs580033799 SNP Detail

Summary

• ID
  rs580033799
• Variation Type
  SNP
• Alleles
  G/T

• Created in dbSNP Build
  142
• Last Updated in dbSNP Build
  142
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr6:42562444 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                        TTTGT TTTTTTTTTT GTTTTTTTTT
  K
  TTTTTTTTTT TTGTTGTTGT TGTTT                                      
  
  K = G/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	AKR/J	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cByJ	BTBR T<+> Itpr3/J	BUB/BnJ	C3H/HeJ	C57BL/6J	C57BL/6NJ	C57L/J	C58/J	CAST/EiJ	CZECHII/EiJ	DBA/1J	DBA/2J	FVB/NJ	KK/HlJ	LP/J	MA/MyJ	NON/ShiLtJ	NZO/HlLtJ	NZW/LacJ	PL/J	PWK/PhJ	QSi3/Ianm	QSi5/Ianm	RF/J	RIIIS/J	SJL/J	SPRET/EiJ	ST/bJ	ZALENDE/EiJ
ss917969906	MGP_WTSI_6_42585510	EVA_MGPV3	EVA_MGPV3	f	SNP	G	G	G	G	G	G	G	G	G	G	G	T	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G
SNP Consensus Information
SNP					Consensus Type	129P2/OlaHsd	AKR/J	B10.RIII-H2 H2-T18/(71NS)SnJ	BALB/cByJ	BTBR T<+> Itpr3/J	BUB/BnJ	C3H/HeJ	C57BL/6J	C57BL/6NJ	C57L/J	C58/J	CAST/EiJ	CZECHII/EiJ	DBA/1J	DBA/2J	FVB/NJ	KK/HlJ	LP/J	MA/MyJ	NON/ShiLtJ	NZO/HlLtJ	NZW/LacJ	PL/J	PWK/PhJ	QSi3/Ianm	QSi5/Ianm	RF/J	RIIIS/J	SJL/J	SPRET/EiJ	ST/bJ	ZALENDE/EiJ
rs580033799					SNP	G	G	G	G	G	G	G	G	G	G	G	T	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G	G

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
ss917969906	MGP_WTSI_6_42585510	SC_MOUSE_GENOMES	SC_MOUSE_GENOMES	f	SNP	G/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr6:42562444 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Gm38798	predicted gene, 38798			1957 bp upstream
Rr629347	regulatory region 629347			1703 bp distal
Rr629348	regulatory region 629348			1802 bp distal
Tcaf3	TRPM8 channel-associated factor 3			Intron
				Noncoding-Transcript-Variant
Tssr56046	transcription start site region 56046			284 bp downstream
Tssr56047	transcription start site region 56047			135 bp downstream
Tssr56048	transcription start site region 56048			450 bp upstream
Tssr56049	transcription start site region 56049			500 bp upstream
Tssr60620	transcription start site region 60620			230 bp downstream
Tssr60621	transcription start site region 60621			248 bp downstream
Tssr60622	transcription start site region 60622			294 bp downstream
Tssr60623	transcription start site region 60623			350 bp downstream
Tssr60624	transcription start site region 60624			392 bp downstream
Tssr60625	transcription start site region 60625			460 bp downstream
Tssr60626	transcription start site region 60626			475 bp downstream
Tssr60627	transcription start site region 60627			491 bp downstream
Tssr60628	transcription start site region 60628			635 bp downstream
Tssr60629	transcription start site region 60629			690 bp downstream
Tssr60630	transcription start site region 60630			759 bp downstream
Tssr60631	transcription start site region 60631			803 bp downstream
Tssr60632	transcription start site region 60632			855 bp downstream
Tssr60633	transcription start site region 60633			881 bp downstream
Tssr60634	transcription start site region 60634			894 bp downstream
Tssr60635	transcription start site region 60635			960 bp downstream
Tssr60636	transcription start site region 60636			1065 bp downstream
Tssr60637	transcription start site region 60637			1321 bp downstream
Tssr60638	transcription start site region 60638			1361 bp downstream
Tssr60639	transcription start site region 60639			1412 bp downstream
Tssr60640	transcription start site region 60640			1667 bp downstream