rs50020425 SNP Detail

Summary

• ID
  rs50020425
• Variation Type
  SNP
• Alleles
  A

• Created in dbSNP Build
  127
• Last Updated in dbSNP Build
  142
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr1:135695291 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                        TGGCC AAAGGCATGC TGGGCCAGAG
  A
  AGGAGAAGCT AGAAGAGGGA TGGGT                                      
  
  A = A
  

  
  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/J	DBA/2J	LG/J	SM/J
ss145545576	ENSMUSSNP6603860	ENSEMBL	ENSEMBL_Sanger	f	SNP	A	A
ss319993148	CHEV_1_137664130	CHEVERUD	SCREENING_POP	f	SNP			A	A
SNP Consensus Information
SNP					Consensus Type	A/J	DBA/2J	LG/J	SM/J
rs50020425					SNP	A	A	A	A

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:135695291 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Phlda3	pleckstrin homology like domain, family A, member 3			Intron
				Noncoding-Transcript-Variant
Rr372092	regulatory region 372092			606 bp downstream
Rr419269	regulatory region 419269			1424 bp distal
Tssr223	transcription start site region 223			1474 bp downstream
Tssr224	transcription start site region 224			1352 bp downstream
Tssr8974	transcription start site region 8974			1378 bp downstream
Tssr8975	transcription start site region 8975			1345 bp downstream
Tssr8976	transcription start site region 8976			1328 bp downstream
Tssr8977	transcription start site region 8977			1313 bp downstream
Tssr8978	transcription start site region 8978			1296 bp downstream
Tssr8979	transcription start site region 8979			256 bp upstream