rs6173035 SNP Detail

Summary

• ID
  rs6173035
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  116
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr1:75456573 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CGCACAGAGA CCCGTCTCTC
  CGGCCCAGCA GCCCCCTTCG CACGGCAGAC TTTGCCCGGA CCCCAGTCAG TCAGAGCCTC
  TGGTGTCCTA CAACCCCGGC TCCTCCGGCC CCTGCACACC CTCCTTTGCT CGGAAGCTCC
  GGTCACCTCC GGCCCAGGTA GATCTTGGAC AATTCCAAAT TGAGCCTCCC ACAGATGGTG
  Y
  TCAGGCTGCC TCTTTTTGCC AGCGGCACCC TCCCTCTCCT CGTCTAGCCC CATCTAGTCC
  CTCTTTTAAG TCCATCCCAG CCGCCTCTAG CCAGGCACTT GTTTCCCTTT GTCTCTGCTC
  CCCGTTCCAG AGATGCTTCT AGAGCTGCCT GATGTGGGCA ACCATTCCTT TGTCCACTGT
  GCCCTTGCTG AATTCCCCCA                                            
  
  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	C57BL/6J	CZECHII/EiJ
ss8578580	WI_WGS_1_76322987	WI	MOUSE	f	SNP	C	T
SNP Consensus Information
SNP					Consensus Type	C57BL/6J	CZECHII/EiJ
rs6173035					SNP	C	T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr1:75456573 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Chpf	chondroitin polymerizing factor			622 bp upstream
Rr413450	regulatory region 413450			1878 bp distal
Rr413451	regulatory region 413451			1212 bp distal
Rr413452	regulatory region 413452			339 bp distal
Rr413453	regulatory region 413453			217 bp distal
Tmem198	transmembrane protein 198			Intron
				mRNA-UTR
Tssr7538	transcription start site region 7538			412 bp downstream
Tssr7539	transcription start site region 7539			336 bp downstream
Tssr12402	transcription start site region 12402			805 bp upstream
Tssr12403	transcription start site region 12403			787 bp upstream
Tssr12404	transcription start site region 12404			770 bp upstream
Tssr12405	transcription start site region 12405			761 bp upstream
Tssr12406	transcription start site region 12406			571 bp upstream
Tssr12407	transcription start site region 12407			525 bp upstream