rs52439956 SNP Detail

Summary

• ID
  rs52439956
• Variation Type
  SNP
• Alleles
  G/T

• Created in dbSNP Build
  128
• Last Updated in dbSNP Build
  138
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr2:119449564 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                        AAGAA AAGCCGAGGC TGTTACTCTA
  K
  TTGGAGGCTT TTTTTATTAT ATTTG                                      
  
  K = G/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	129X1/SvJ	A/J	LG/J	MSM/Ms	SM/J
ss147337161	ENSMUSSNP4061850	ENSEMBL	ENSEMBL_Sanger	f	SNP	T	T		G
ss320476344	CHEV_2_119444819	CHEVERUD	SCREENING_POP	f	SNP			G		T
SNP Consensus Information
SNP					Consensus Type	129X1/SvJ	A/J	LG/J	MSM/Ms	SM/J
rs52439956					SNP	T	T	G	G	T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr2:119449564 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi12123	CpG island 12123			154 bp distal
Nusap1	nucleolar and spindle associated protein 1			Intron
				Noncoding-Transcript-Variant
Oip5	Opa interacting protein 5			614 bp upstream
Rr397233	regulatory region 397233			327 bp downstream
Rr563550	regulatory region 563550			775 bp distal
Rr563551	regulatory region 563551			774 bp distal
Rr563552	regulatory region 563552			356 bp distal
Rr563553	regulatory region 563553			879 bp proximal
Rr563554	regulatory region 563554			1847 bp proximal
Tssr19645	transcription start site region 19645			346 bp downstream
Tssr25824	transcription start site region 25824			573 bp upstream