rs6393988 SNP Detail

Summary

• ID
  rs6393988
• 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
  Chr3:27246110 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              ACTCAAATGA CAGAGCATAA
  GTTACAGATG GGGCTTTTAT GGAGCCCACA AAAGAACACC AGACACAGAC CTGGAGTCAG
  GGCTAGGTGG TACACACCTG TAATACCAGC ACTGGAGAGG TGGAGGCAGG AGGATCAGAA
  GGTCAAGTCT GCATGAGACC AAGTAGCAGA AAGTGGCCCT GGGTACTGGG CCTGTTCCCT
  Y
  TTTAATCTGT TAGCAAGACT GAGTATTGAC AGCACACTCA GTCTTTAAAC ATCACGAGCA
  CTGCCTCTCT CAGATCCTGT GCTTCGCATG TGATTCATTG CGTCACTCCA GCAACATGGC
  ATTTTTCTTT ATGTGACAAG AGGAGAGGAC TCAAAAGGAA GAAAAATAAC TTGCTCAGTA
  TGGCAGCGCT GAGGAGGTGG                                            
  
  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
ss8800165	WI_WGS_3_27016669	WI	MOUSE	f	SNP	C	T
SNP Consensus Information
SNP					Consensus Type	C57BL/6J	CZECHII/EiJ
rs6393988					SNP	C	T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:27246110 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Nceh1	neutral cholesterol ester hydrolase 1			Intron
				Noncoding-Transcript-Variant
Rr374718	regulatory region 374718			755 bp downstream
Rr574360	regulatory region 574360			1757 bp distal
Rr574361	regulatory region 574361			729 bp distal
Rr574362	regulatory region 574362			within coordinates
Rr574363	regulatory region 574363			1826 bp proximal
Tssr28610	transcription start site region 28610			171 bp upstream
Tssr32839	transcription start site region 32839			17 bp upstream
Tssr32840	transcription start site region 32840			13 bp downstream