rs28052569 SNP Detail

Summary

• ID
  rs28052569
• Variation Type
  SNP
• Alleles
  C/T

• 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
  Chr4:75943778 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                        AATATATTTA ATAAATATTT TAGAATTAAA AAAATCACAT
  GTTAAATCAG AATTTTTTGA TGAAACACCA AATTACTCAT TCAGTTTCCA ATCTGGATTC
  Y
  CATAAAAAAG GCAAGAGAAG TTAGCACAAT TTTAAGATCT ACTATAATAC ACTGTATTTT
  CCTCAGAAAT ATTTTCCTTT ATCTAGAGTG TCTACTCAG                       
  
  Y = C/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	129S1/SvImJ	129X1/SvJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	C57BL/6J	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
ss38197002	NES09601721	PERLEGEN	MM_PANEL2	f	SNP	T		T	C	T	T	C		T	T	C	C	T	C			C
ss45623344	mCV24419757	ABI	CRAMUS_MOUSE	f	SNP		T	T					C		T
ss47700760	NES10225868	PERLEGEN	MM_PANEL2	r	SNP	A		A	G	A	A	G		A	A	G	G	A	G	A	A	G
ss146576070	ENSMUSSNP6163498	ENSEMBL	ENSEMBL_Sanger	f	SNP		T	T							T
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	129X1/SvJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	C57BL/6J	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
rs28052569					SNP	T	T	T	C	T	T	C	C	T	T	C	C	T	C	T	T	C

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
ss38197002	NES09601721	PERLEGEN	MM_PANEL	f	SNP	C/T
ss47700760	NES10225868	PERLEGEN	MM_PANEL	r	SNP	A/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr4:75943778 () 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
Rr594066	regulatory region 594066			880 bp distal
Rr594067	regulatory region 594067			118 bp proximal