rs28052574 SNP Detail

Summary

• ID
  rs28052574
• Variation Type
  SNP
• Alleles
  A/G

• Created in dbSNP Build
  125
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr4:75941949 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GATTTTATTG TACTGACTAT
  GGCTAAGTCT AAATTGAAGA TGCATGTTGA AAATACAGCA GGCTAGCAAA CAAAATTCAA
  GGGAGCTAAC CTTTCTTATA AATAGCGATA TGGGCAAAGA AACGAATAAA GATGGTATGC
  TCTGAAAGAT TCCCCTATTC CAAGATAGAT ATTAAAAACA AGCAGAACAC CTTACTCAAT
  R
  ATTTTGAGAG TGGATAGAAC ATAAAAGAAT CTGTATGATA CTGGAAGTTT CTACATTTCT
  CTCTGCAGTC CTCTATTTCA TCCAGCTGGG GAAATTTGGT TGAAATTGTA GCATACAATG
  CTATGGTTCT TAACCGCTCC CGCAGCCTAC AGAACAGCAG CAATTCTGCC AGCGAAACAC
  AATAAAGAAC AAATGCTCGC                                            
  
  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	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	C57BL/6J	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
ss38197007	NES09601808	PERLEGEN	MM_PANEL2	f	SNP		G	A	G	G				G	A	A			G				G
ss45693332	mCV24419817	ABI	CRAMUS_MOUSE	f	SNP	G	G					A		G
ss47700750	NES10225739	PERLEGEN	MM_PANEL2	r	SNP		C	T	C		T		C	C		T		C	C	C	C		C
ss146576015	ENSMUSSNP2253123	ENSEMBL	ENSEMBL_Sanger	f	SNP	G	G							G
ss321169684	CHEV_4_75669616	CHEVERUD	SCREENING_POP	f	SNP												A					G
SNP Consensus Information
SNP					Consensus Type	129X1/SvJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	C57BL/6J	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	LG/J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	SM/J	WSB/EiJ
rs28052574					SNP	G	G	A	G	G	A	A	G	G	A	A	A	G	G	G	G	G	G

Additional submitted assays for this SNP, where the strain of origin for observed alleles is not specified by the submitter

Assay ID	Submitter SNP ID	Submitter Handle	Population	ss orientation	Variation Type	Alleles
ss38197007	NES09601808	PERLEGEN	MM_PANEL	f	SNP	A/G
ss47700750	NES10225739	PERLEGEN	MM_PANEL	r	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr4:75941949 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Ptprd	protein tyrosine phosphatase receptor type D			Intron
				Noncoding-Transcript-Variant
Rr594065	regulatory region 594065			1559 bp distal
Rr594066	regulatory region 594066			239 bp proximal
Rr594067	regulatory region 594067			1947 bp proximal