rs27620079 SNP Detail

Summary

• ID
  rs27620079
• Variation Type
  SNP
• Alleles
  A/G

• 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
  Chr4:135674958 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CTACAAAGCG AGTTCCAGGA
  CAGCCAGGAC TACACAGAGA AACCCTGTGT CGAAAGAAAC AAAAACAAAA AAAAAACAAA
  AAAAAAAAAA AACAAAAACA AAAAAAATGG GAAAGAAAAA GAAAGCCACT TCTGCATCTT
  TAGTCTACCC ACTTCCAATG ATTGCTCAGG GATCAAATGA AAAGGCAAAT ATCAACGTGA
  R
  AAGTTAAGGA AATAAACCCG AGGGGGAGAG GGGGAGAGAA TGAGAATTAA GTAACATGGT
  GGGTCATAAT ATCTATCTAT CTATCTATCT ATCTATCTAA GACAAAGTTT CTTTCTATAT
  AACTTTGGTA TTCACTACAT AGACCAGGCT AGCTTCAAAC TCAGAGCCTG CTATGACTCT
  GGGCTTACAG GCATGGACCA                                            
  
  R = A/G
  

  
  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	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	DBA/2J	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
ss37778120	NES09152490	PERLEGEN	MM_PANEL2	f	SNP	G	A	A	A	A	A	G	G	A	A	A	A
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	AKR/J	BALB/cByJ	BTBR T<+> Itpr3/J	C3H/HeJ	DBA/2J	KK/HlJ	MOLF/EiJ	NOD/ShiLtJ	NZW/LacJ	PWD/PhJ	WSB/EiJ
rs27620079					SNP	G	A	A	A	A	A	G	G	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
ss37778120	NES09152490	PERLEGEN	MM_PANEL	f	SNP	A/G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr4:135674958 () rs orientation: forward

Symbol	Name	Transcript	Protein	Function Class	Allele	Residue	Codon Position	AA Position
Cpgi15085	CpG island 15085			355 bp distal
Gm69275	predicted gene, 69275			1270 bp upstream
Hmgcl	3-hydroxy-3-methylglutaryl-Coenzyme A lyase			Intron
				Noncoding-Transcript-Variant
Rr602211	regulatory region 602211			1281 bp distal
Rr602212	regulatory region 602212			1189 bp distal
Rr602213	regulatory region 602213			212 bp distal
Rr602214	regulatory region 602214			592 bp proximal
Rr602215	regulatory region 602215			1149 bp proximal
Tssr39660	transcription start site region 39660			1152 bp downstream
Tssr39661	transcription start site region 39661			769 bp upstream
Tssr44007	transcription start site region 44007			1265 bp upstream