rs30464580 SNP Detail

Summary

• ID
  rs30464580
• Variation Type
  SNP
• Alleles
  A/T

• Created in dbSNP Build
  125
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser | Alliance Variant
  

Genome Location and Flanking Sequence

• Location
  Chr3:27248232 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CAGTCCTCTA CCCAGCTTCC
  TGTCCCCCAA CAGCCTTGCT GTGAGTTTGT TTGTCCTTGT GTGTGTGACA CCTTGTCTCC
  TGTCCCCATG CCTCAGAGGC CCCGCTTACC CTCTTGCTTT GGCCAATAGC CCATGCATCT
  CTCAACAGCA GCTTCTCCCC TCCGCAGTGT TCCCCTCCAC CGGGCAGATT GCTCTCTGAC
  W
  GGTTTTGGTT TTGACAGTCA TTTACGATAA AGGAGCCAGA GGAGTTTCTG GTTCTGATTT
  CCTTCGGTCT GGTGCCCTCA CTGCCTCAAG GATCTGACCT CAGTGCTCAC GTGCTTCTGA
  CTCTCAACTT GGCTGAAAAC CTCCTTTTGT TTCCTCTGCA GGCTTTTTTT TTTTTTTTCT
  TCAAGCCTGT TGTTTTCTGG                                            
  
  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	C3H/HeJ	C57BL/6J	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
ss45433169	mCV27552826	ABI	CRAMUS_MOUSE	f	SNP	A	T			A		A
ss60380367	NES15883584	PERLEGEN	MM_PANEL2	f	SNP	A	T	T	T		T	A	A	A	T	A	A	T	A
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/J	AKR/J	C3H/HeJ	C57BL/6J	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
rs30464580					SNP	A	T	T	T	A	T	A	A	A	T	A	A	T	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
ss60380367	NES15883584	PERLEGEN	MM_PANEL	f	SNP	A/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:27248232 () 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
Rr574362	regulatory region 574362			1890 bp distal
Rr574363	regulatory region 574363			within coordinates
Tssr28610	transcription start site region 28610			1937 bp downstream
Tssr28611	transcription start site region 28611			177 bp upstream
Tssr28612	transcription start site region 28612			282 bp upstream
Tssr28613	transcription start site region 28613			611 bp upstream
Tssr32841	transcription start site region 32841			within coordinates
Tssr32842	transcription start site region 32842			41 bp downstream
Tssr32843	transcription start site region 32843			112 bp downstream