rs16822058 SNP Detail

Summary

• ID
  rs16822058
• Variation Type
  SNP
• Alleles
  C/T

• 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
  Chr2:91014600 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GCAGGATGGG CGGGGCCCTG
  AAGAACCCTG CACAAAGTGG CTCTCCTGGC TAGTTTATTT GGTTGGGTCA ACAAGGTCTT
  CAGATGGTAT ACAACGTTAG TAGATCCCAA CTGCCCAGCA GCCAGAAAAC ACCCAACCTG
  TTGACTCTCC CTTAATGCTA CGCAAGGCTC TCTCCTTCAC CCAGCTCCCA GGAATGTCTG
  Y
  CCTTCTCAGT CTGCTCCACC CGTGGGAAGC AGTCAGTGAG CCTTCGCCAT GTGGCCAACA
  CAAAGGACAC GGTGAAACAG TCACTCGTGG ACATCCCAGA TCTCAGACAG CAGAGGGGGA
  AGCTTTTTGT CCTGCAGGCG AAGGGCAAAC ACTTGCTCTG AATGGACGCT GCTCAAAGTA
  CGGAGGCTCA CCAGCTTCAT                                            
  
  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	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	SPRET/EiJ
ss24777837	Nr1h3_JC9762_5	ROCHEBIO	RPAMM	f	SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	T	C	T	C	C	C	C	C
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	SPRET/EiJ
rs16822058					SNP	C	C	C	C	C	C	C	C	C	C	C	C	C	C	T	C	T	C	C	C	C	C

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr2:91014600 () rs orientation: forward

Symbol	Name	Function Class
Cpgi11898	CpG island 11898	831 bp distal
Gm74571	predicted gene, 74571	1793 bp downstream
Madd	MAP-kinase activating death domain	1196 bp upstream
Nr1h3	nuclear receptor subfamily 1, group H, member 3	within coordinates
Rr367225	regulatory region 367225	66 bp downstream
Rr397125	regulatory region 397125	855 bp downstream
Rr560661	regulatory region 560661	1418 bp distal
Rr560662	regulatory region 560662	1579 bp distal
Rr560663	regulatory region 560663	718 bp distal
Rr560664	regulatory region 560664	1337 bp distal
Rr560665	regulatory region 560665	within coordinates
Tssr25161	transcription start site region 25161	1322 bp upstream
Tssr25162	transcription start site region 25162	1303 bp upstream
Tssr25163	transcription start site region 25163	1195 bp upstream
Tssr25164	transcription start site region 25164	415 bp upstream
Tssr25165	transcription start site region 25165	356 bp upstream
Tssr25166	transcription start site region 25166	294 bp upstream
Tssr25167	transcription start site region 25167	232 bp upstream