rs46399752 SNP Detail

Summary

• ID
  rs46399752
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  127
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr3:27249226 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CTTTTGCTTT TATTTATTTT
  GTGTGTGAGT GTGTGGGCAC AGGTCTGTCA GAGCACACAC GTGGAGGTCA AAGTTCAACT
  TGTAGGATTC AGTTCGCCTC CTCTTCATCA GCCTCAGAGG CTGGACTCAG GTCCTTAGGC
  CTAGCCGCAG GTGCCTTTAC CTGCTGAGCC GTCTCCCTGA CTCTCTTCTG AATGATTGAA
  Y
  GTCCATTTTG ATGAGGCTGT TGAGCTTGCT ACAAAACCTC TGACTGAGGG TTTTTTTTAA
  AATTTGTTTA ATTTTTTAAA ACTTTTTATT GATTCATTGT GAGTTTCACA TCATACATCC
  AACCCCACTC ATCTCCCTGT CCCTTCATTT TCTCCCTCTG CCCTTGTAGC TTCCCCCCAA
  AAGAAAAAAA AATGCCTTGT                                            
  
  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	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
ss60380365	NES15883550	PERLEGEN	MM_PANEL2	f	SNP	C	C	C	C	C	C	C	C	C	C	C	C	T	C
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
rs46399752					SNP	C	C	C	C	C	C	C	C	C	C	C	C	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
ss60380365	NES15883550	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:27249226 () 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
Rr574363	regulatory region 574363			642 bp distal
Rr574364	regulatory region 574364			1529 bp proximal
Tssr28611	transcription start site region 28611			811 bp downstream
Tssr28612	transcription start site region 28612			704 bp downstream
Tssr28613	transcription start site region 28613			378 bp downstream
Tssr32841	transcription start site region 32841			993 bp upstream
Tssr32842	transcription start site region 32842			919 bp upstream
Tssr32843	transcription start site region 32843			871 bp upstream