rs27620065 SNP Detail

Summary

• ID
  rs27620065
• Variation Type
  SNP
• Alleles
  C/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
  Chr4:135681286 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              AAAAGAAAAG TATTGGAGAC
  AAAAGATTCA GTAGTGAGGA GGTTTTTTCT CCCGCTGAGC TCTTGGCTTC TTCGGCTCCC
  AGATGGCTGA CCACTCTGAC GTCTTGAAGG GCATTCAGAA GTTTCCCGGC ATCAACTACC
  CAGTCCTGAC TCCAAACATG AAAGGCTTTG AGGAAGCGGT AAGAGGTTGA CTGGCGAGGC
  Y
  CCTGAGAGAG ACTGATGGTT ACCAGTCCCT GCCTTGTCCT GGGATGTCCC TCTGAACAGC
  CTGCCACCAG TGGGGCTGAA TACCATCAGA CTGGGGCTGG GGGTGGGGCT GGAGGGTTTG
  GGGGAGGGGG GAGTTCAGCC CTGTCACTCA CTCCTCTGTT GTCTTGATGA ATTGCTTAAC
  CTCAGTCAGT TCTGCCTCTG                                            
  
  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	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
ss37778105	NES09152228	PERLEGEN	MM_PANEL2	f	SNP	T	C	C	C	C	C	C	C	C	T	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	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
rs27620065					SNP	T	C	C	C	C	C	C	C	C	T	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
ss37778105	NES09152228	PERLEGEN	MM_PANEL	f	SNP	C/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr4:135681286 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Hmgcl	3-hydroxy-3-methylglutaryl-Coenzyme A lyase			Intron
				Noncoding-Transcript-Variant
Rr398602	regulatory region 398602			328 bp upstream
Rr602217	regulatory region 602217			355 bp distal
Rr602218	regulatory region 602218			363 bp proximal
Rr602219	regulatory region 602219			464 bp proximal