rs6299952 SNP Detail

Summary

• ID
  rs6299952
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  116
• Last Updated in dbSNP Build
  132
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr4:109266086 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                                         ATATAACAAT
  ACTTTCTTGG CAGTGGGGAC AGGGTGGGtt aagacagggt ctcctgtagc ccaggctgct
  ggtgtactct ntgtgtaccc aaggatgacc tttgaactcc tcatggtccc atccctacct
  cccaccagct gggactacag gcatgtgcta ccatgcccag ttAACAAATG TGAAATGTGA
  AATGTgcagg gcagtggtgg cacacacctt tagtcccagc acttgggagg cagaggcagg
  Y
  ggatttcttt ctgagtgcaa gaccagcctg gtctacagag tgagttccag gacagccagg
  gctanacaga gaaactctgt ttcaaaacaa aacaaaacaa aacaatgtgt gtgtgtgtgt
  gtgtgtgngt gtgtgtgagt atgtgtgtgt gAAATGTTTT TAAGGCTTCA GAAGAATGGT
  AAATAATTCT AAGGCATTTT GATTTTTAAG TTATGTAGGC AGAAGAGGGC ATCAGATCCC
  CTGCAGTTGG                                                       
  
  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	129X1/SvJ	A/J	C57BL/6J	CZECHII/EiJ	DBA/2J
ss8705869	WI_WGS_4_107160311	WI	MOUSE	f	SNP			T	C
ss147197614	ENSMUSSNP1725133	ENSEMBL	ENSEMBL_Sanger	f	SNP	C	C			C
SNP Consensus Information
SNP					Consensus Type	129X1/SvJ	A/J	C57BL/6J	CZECHII/EiJ	DBA/2J
rs6299952					SNP	C	C	T	C	C

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr4:109266086 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi14573	CpG island 14573			987 bp distal
Rr597313	regulatory region 597313			1769 bp distal
Rr597314	regulatory region 597314			481 bp distal
Rr597315	regulatory region 597315			1599 bp proximal
Tssr38346	transcription start site region 38346			1770 bp downstream
Tssr38347	transcription start site region 38347			1724 bp downstream
Ttc39a	tetratricopeptide repeat domain 39A			Intron
				Noncoding-Transcript-Variant