rs27620080 SNP Detail

Summary

• ID
  rs27620080
• Variation Type
  SNP
• Alleles
  G/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
  Chr4:135674493 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TGGTCCTGGC ATTCTGACCA
  CGCGCAGTTA TTTGAAGGAA GGGGGGGGGG GCAAAAAGAG CTGTGCTGGC TAAACCGCAA
  ACTGGTGTCC GGGTGATCTG CCACTTTCTA GGCTGAGTGA CAGAGGTGTG TACTCAGCTT
  GCTTATACGT AAAATGCAGA GTCTCAGGAT GATTTAGTGA GTGACCAGTC AGTCGGTGGT
  K
  GTGCTTTGTG AGAGTTGGAC TTAGGAGCGA TCAGCGCCAG CGTCACTGCT ACACCCTCAG
  CTCTGTGATG GCGCTGTTAC GATTTTATGT TGGGGAGTTT AGGCATTGTA TTAGCACTTG
  GAAAAACTAC TTTCCTTGCA GCTCGTGGGT GCCTCTCAGA AAGCCCAGAA AGCCACTTCT
  GGCCGGGCAT GGTGGCTCAC                                            
  
  K = G/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	129X1/SvJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	C57BL/6J	DBA/2J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
ss37778121	NES09152520	PERLEGEN	MM_PANEL2	f	SNP	T		G	G	G	G	G		G	T	G	G	T	G
ss45598212	mCV22566131	ABI	CRAMUS_MOUSE	f	SNP		T	G					G
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	129X1/SvJ	A/J	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	C57BL/6J	DBA/2J	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
rs27620080					SNP	T	T	G	G	G	G	G	G	G	T	G	G	T	G

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
ss37778121	NES09152520	PERLEGEN	MM_PANEL	f	SNP	G/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr4:135674493 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Gm69275	predicted gene, 69275			805 bp upstream
Hmgcl	3-hydroxy-3-methylglutaryl-Coenzyme A lyase			Intron
				Noncoding-Transcript-Variant
Rr602211	regulatory region 602211			816 bp distal
Rr602212	regulatory region 602212			724 bp distal
Rr602213	regulatory region 602213			within coordinates
Rr602214	regulatory region 602214			1057 bp proximal
Rr602215	regulatory region 602215			1614 bp proximal
Tssr39660	transcription start site region 39660			687 bp downstream
Tssr39661	transcription start site region 39661			1234 bp upstream
Tssr44007	transcription start site region 44007			800 bp upstream