rs49823270 SNP Detail

Summary

• ID
  rs49823270
• Variation Type
  SNP
• Alleles
  A/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
  Chr3:27246892 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TCCATGTATC CTCTGAGGAA
  GGACCCTGAG CTTGGGATGT TCTTGCTTCT GTCCCCCAAG GTGCAGAGAT CACATGTATT
  TAGCATCCTG CTGCTGATGA GGTGCTGACA ACCCCTGGCT TCCACCATGC TAAGGCAAGC
  ACTTCCCAAG GAAGTCTACT ACTAGCACTC AGGAGTGTTA TGGTTTGTTT TCTGGTTCTG
  W
  TGCTAGGGCC TCGTGCATAC TAGGTGTGGT GGTTTGTATA TGCTTGGCCC AGGCAGTGGC
  ACTATTTGGA GGTAAGGCCC TGTTGGAGTA GGTAGATGTA GCCTTGTTGG AGTAGGCATG
  GCACTGTGTG GGTGTAGACT TTAAGACCCT CGTCCTAGCT GCCTGGAAGC CAGTATTTTC
  CTAGCAGCCT CCAGTTGGAG                                            
  
  W = A/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	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
ss60380375	NES15883623	PERLEGEN	MM_PANEL2	f	SNP	A	T	T	A	A	T	T	A	A	A	A	A	A	A	A
ss134702641	ENSMUSSNP4685659	ENSEMBL	ENSEMBL_Sanger	f	SNP		T
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	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
rs49823270					SNP	A	T	T	A	A	T	T	A	A	A	A	A	A	A	A

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
ss60380375	NES15883623	PERLEGEN	MM_PANEL	f	SNP	A/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:27246892 () 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			1537 bp downstream
Rr574361	regulatory region 574361			1511 bp distal
Rr574362	regulatory region 574362			550 bp distal
Rr574363	regulatory region 574363			1044 bp proximal
Tssr28610	transcription start site region 28610			597 bp downstream
Tssr28611	transcription start site region 28611			1517 bp upstream
Tssr28612	transcription start site region 28612			1622 bp upstream
Tssr28613	transcription start site region 28613			1951 bp upstream
Tssr32839	transcription start site region 32839			799 bp upstream
Tssr32840	transcription start site region 32840			757 bp upstream
Tssr32841	transcription start site region 32841			1326 bp downstream
Tssr32842	transcription start site region 32842			1381 bp downstream
Tssr32843	transcription start site region 32843			1452 bp downstream