rs16822054 SNP Detail

Summary

• ID
  rs16822054
• Variation Type
  SNP
• Alleles
  A/G

• Created in dbSNP Build
  123
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser
  

Genome Location and Flanking Sequence

• Location
  Chr2:91014189 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CACACACACA CACACACACA
  CACACACACA CACACGTGAA GTGTACTGCT GAGTTCTTGC TGAAGATCCA ACTCCTCCCC
  CCACAGGAAG AGCACCTGCT CCTACCTGGA TCATTAAAGG GAAGGAGCAC CTAAGCCGCT
  GGCCCAGTGA ACAGGAGCTG TCGCTTGTGA TTCGCCCCTC TCCTCTGAGT CTGGAGGCAG
  R
  TCCTAACAGA CACAGGCTTG CTCTGACAGG GCGGCAGCCC CACTCTCGAT CCGGAAATTT
  GCTTCCCTGG TTCTATATTC ATCTTGGCCT TCCTGTTTCA AGTGCCACAT CTATTGGTGA
  GGCAGCCCTG AGGCACTCTC TAGCCAAGCC ACAAAGCGAT AGTGGAGAAT TTCTTTGGGG
  CTCAGTGAGG AAAAACAGGA                                            
  
  R = A/G
  

  
  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	A/HeJ	A/J	AKR/J	B10.D2-Hc<0> H2 H2-T18/oSnJ	BALB/cByJ	BALB/cJ	BUB	C3H/HeJ	C57BL/6J	CAST/EiJ	DBA/2J	FVB	LG/J	LP/J	MOLF	MRL/MpJ	MSM	NZB/BlNJ	NZW/Lac	PERA	SM/J
ss24777833	Nr1h3_JC9762_1	ROCHEBIO	RPAMM	f	SNP	A	A	A	A	A	A	A	A	A	A	A	A	A	A	G	A	G	A	A	A	A
SNP Consensus Information
SNP					Consensus Type	A/HeJ	A/J	AKR/J	B10.D2-Hc<0> H2 H2-T18/oSnJ	BALB/cByJ	BALB/cJ	BUB	C3H/HeJ	C57BL/6J	CAST/EiJ	DBA/2J	FVB	LG/J	LP/J	MOLF	MRL/MpJ	MSM	NZB/BlNJ	NZW/Lac	PERA	SM/J
rs16822054					SNP	A	A	A	A	A	A	A	A	A	A	A	A	A	A	G	A	G	A	A	A	A

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr2:91014189 () rs orientation: forward

Symbol	Name	Function Class
Cpgi11898	CpG island 11898	420 bp distal
Gm74571	predicted gene, 74571	1382 bp downstream
Madd	MAP-kinase activating death domain	785 bp upstream
Nr1h3	nuclear receptor subfamily 1, group H, member 3	217 bp downstream
Rr367225	regulatory region 367225	44 bp upstream
Rr397125	regulatory region 397125	444 bp downstream
Rr560660	regulatory region 560660	1645 bp distal
Rr560661	regulatory region 560661	1007 bp distal
Rr560662	regulatory region 560662	1168 bp distal
Rr560663	regulatory region 560663	307 bp distal
Rr560664	regulatory region 560664	926 bp distal
Rr560665	regulatory region 560665	within coordinates
Tssr18868	transcription start site region 18868	1632 bp downstream
Tssr25161	transcription start site region 25161	911 bp upstream
Tssr25162	transcription start site region 25162	892 bp upstream
Tssr25163	transcription start site region 25163	784 bp upstream
Tssr25164	transcription start site region 25164	4 bp upstream
Tssr25165	transcription start site region 25165	within coordinates
Tssr25166	transcription start site region 25166	110 bp downstream
Tssr25167	transcription start site region 25167	133 bp downstream