rs16822039 SNP Detail

Summary

• ID
  rs16822039
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  123
• Last Updated in dbSNP Build
  142
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr2:91012073 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                        CAGTG GCAGAATGTA TTTTTAGGCT
  Y
  AATTCGTATC CCATCAATAG CCAGT                                      
  
  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	129S1/SvImJ	A/HeJ	A/J	AKR/J	B10.D2-Hc<0> H2 H2-T18/oSnJ	BALB/cByJ	BALB/cJ	BTBR T<+> Itpr3/J	BUB	C3H/HeJ	C57BL/6J	CAST/EiJ	DBA/2J	FVB	FVB/NJ	KK/HlJ	LG/J	LP/J	MOLF	MRL/MpJ	MSM	NOD/ShiLtJ	NZB/BlNJ	NZW/Lac	NZW/LacJ	PERA	PWD/PhJ	SM/J	SPRET/EiJ	WSB/EiJ
ss24777818	Nr1h3_JC9759_2	ROCHEBIO	RPAMM	f	SNP		T	T	C	C	T	T		C	C	C	C	T	C			C	T	C	C	C		T	C		C		T	C
ss37604857	NES09103413	PERLEGEN	MM_PANEL2	f	SNP	C		T	C		T		C		C			T		C	T						T			C		C			T
ss45207009	mCV22766109	ABI	CRAMUS_MOUSE	f	SNP			T								C
ss320391929	CHEV_2_91021885	CHEVERUD	SCREENING_POP	f	SNP																	C											T
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/HeJ	A/J	AKR/J	B10.D2-Hc<0> H2 H2-T18/oSnJ	BALB/cByJ	BALB/cJ	BTBR T<+> Itpr3/J	BUB	C3H/HeJ	C57BL/6J	CAST/EiJ	DBA/2J	FVB	FVB/NJ	KK/HlJ	LG/J	LP/J	MOLF	MRL/MpJ	MSM	NOD/ShiLtJ	NZB/BlNJ	NZW/Lac	NZW/LacJ	PERA	PWD/PhJ	SM/J	SPRET/EiJ	WSB/EiJ
rs16822039					SNP	C	T	T	C	C	T	T	C	C	C	C	C	T	C	C	T	C	T	C	C	C	T	T	C	C	C	C	T	C	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
ss37604857	NES09103413	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr2:91012073 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi11898	CpG island 11898			391 bp proximal
Gm74571	predicted gene, 74571			461 bp upstream
Madd	MAP-kinase activating death domain			Intron
				Noncoding-Transcript-Variant
Rr397125	regulatory region 397125			1371 bp upstream
Rr560660	regulatory region 560660			94 bp proximal
Rr560661	regulatory region 560661			472 bp proximal
Rr560662	regulatory region 560662			927 bp proximal
Rr560663	regulatory region 560663			1110 bp proximal
Rr560664	regulatory region 560664			1169 bp proximal
Tssr18868	transcription start site region 18868			455 bp upstream
Tssr25161	transcription start site region 25161			1140 bp downstream
Tssr25162	transcription start site region 25162			1213 bp downstream
Tssr25163	transcription start site region 25163			1289 bp downstream