rs29663996 SNP Detail

Summary

• ID
  rs29663996
• Variation Type
  SNP
• Alleles
  C/T

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

Genome Location and Flanking Sequence

• Location
  Chr3:9866254 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                        GGAAAGTCTT TCCACTTCGG GTCCCCTAAG AAGAGAGACC
  AGCAAGAGTC GGTCGGGTGG GAGGCTCTGA GTTATAGAAC TAAAATGGCT CATTAGAAAA
  Y
  CAGACACTGA GGAAACATTT CCTCTTACAC GAACCAAATC ATGTAAGACA CGAACTATAA
  TCAGCCACAA GCCTTCTGTT GAAACCCCAG AGAAACCACT                      
  
  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	A/J	AKR/J	BTBR T<+> Itpr3/J	CAST/EiJ	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
ss49556412	NES12897070	PERLEGEN	MM_PANEL2	f	SNP	T	T	T	T	T	T	T	T	T	T	C	T
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	AKR/J	BTBR T<+> Itpr3/J	CAST/EiJ	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
rs29663996					SNP	T	T	T	T	T	T	T	T	T	T	C	T

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
ss49556412	NES12897070	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:9866254 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Pag1	phosphoprotein associated with glycosphingolipid microdomains 1			Intron
				mRNA-UTR
Rr573506	regulatory region 573506			1079 bp distal
Rr573507	regulatory region 573507			508 bp proximal
Tssr815	transcription start site region 815			569 bp downstream
Tssr28350	transcription start site region 28350			693 bp upstream
Tssr32587	transcription start site region 32587			1818 bp upstream
Tssr32588	transcription start site region 32588			400 bp downstream