rs30546399 SNP Detail

Summary

• ID
  rs30546399
• Variation Type
  SNP
• Alleles
  A/G

• Created in dbSNP Build
  125
• Last Updated in dbSNP Build
  142
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr3:41518825 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                        TAGAT TTTTCTAGAA TGGGTTTCCA
  R
  TGATGAGACC TTTTACTTCC AGCGA                                      
  
  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	129X1/SvJ	A/J	C57BL/6J	DBA/2J	LG/J	SM/J
ss45440090	mCV23248020	ABI	CRAMUS_MOUSE	f	SNP	G	A	A	G
ss135042150	ENSMUSSNP4437081	ENSEMBL	ENSEMBL_Sanger	f	SNP	G	A		G
ss320728794	CHEV_3_41368312	CHEVERUD	SCREENING_POP	f	SNP					G	G
SNP Consensus Information
SNP					Consensus Type	129X1/SvJ	A/J	C57BL/6J	DBA/2J	LG/J	SM/J
rs30546399					SNP	G	A	A	G	G	G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:41518825 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi13118	CpG island 13118			92 bp distal
Cpgi13119	CpG island 13119			124 bp proximal
Gm31266	predicted gene, 31266			1053 bp upstream
Jade1	jade family PHD finger 1			Intron
				Noncoding-Transcript-Variant
Rr575965	regulatory region 575965			773 bp distal
Rr575966	regulatory region 575966			1021 bp distal
Rr575967	regulatory region 575967			202 bp distal
Rr575968	regulatory region 575968			427 bp distal
Rr575969	regulatory region 575969			within coordinates
Rr575970	regulatory region 575970			541 bp proximal
Rr575971	regulatory region 575971			810 bp proximal
Rr575972	regulatory region 575972			1382 bp proximal
Rr575973	regulatory region 575973			1779 bp proximal
Rr575974	regulatory region 575974			1790 bp proximal
Tssr29002	transcription start site region 29002			998 bp downstream
Tssr29003	transcription start site region 29003			924 bp downstream
Tssr29004	transcription start site region 29004			482 bp upstream
Tssr29005	transcription start site region 29005			531 bp upstream
Tssr29006	transcription start site region 29006			607 bp upstream
Tssr33082	transcription start site region 33082			1119 bp downstream