rs49580258 SNP Detail

Summary

• ID
  rs49580258
• Variation Type
  SNP
• Alleles
  A/G

• Created in dbSNP Build
  127
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr3:52950582 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

             TTTACCAGGG GCCACCAGCC ATCTTCACTC CAAAGTATGA GAAGCTGATC
  R
  CGGTAATACT GAAACTCTGT TACGGCAAGT AGCTACATAC GCCTTGAAGA           
  
  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	MSM/Ms
ss135180740	ENSMUSSNP1291348	ENSEMBL	ENSEMBL_Sanger	f	SNP	G	A
SNP Consensus Information
SNP					Consensus Type	129X1/SvJ	MSM/Ms
rs49580258					SNP	G	A

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:52950582 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi13160	CpG island 13160			1066 bp distal
Gm42901	predicted gene 42901			1013 bp upstream
Lhfpl6	LHFPL tetraspan subfamily member 6			mRNA-UTR
				Noncoding-Transcript-Variant
				Splice-Site
Rr576626	regulatory region 576626			1723 bp distal
Rr576627	regulatory region 576627			1568 bp distal
Rr576628	regulatory region 576628			1024 bp distal
Rr576629	regulatory region 576629			694 bp distal
Rr576630	regulatory region 576630			987 bp distal
Rr576631	regulatory region 576631			685 bp distal
Rr576632	regulatory region 576632			1071 bp proximal
Tssr29102	transcription start site region 29102			1582 bp downstream
Tssr29103	transcription start site region 29103			1526 bp downstream