rs4172539 SNP Detail

Summary

• ID
  rs4172539
• Variation Type
  SNP
• Alleles
  A/G

• Created in dbSNP Build
  111
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser
  

Genome Location and Flanking Sequence

• Location
  Chr16:34844558 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                        CACAGTGTAA TCCTGTCTCA AAGAAAAACA AAACCAAAAA
  GACAAAAAAG AAAAAGAAAA GAAAGGAACA CAGGCTTGCA TGTGATTATA CAAGTTCTCA
  R
  AATCCCTGGA TCTAAACTTA AGTCAATAAA GAACTATTGC AGCTACAAGT TGTTGTTCTC
  ATAAATGTCC CCAGATTATT ATTTTTTTAG GAGAACATT                       
  
  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	129X1/SvJ	A/J	C57BL/6J	DBA/2J
ss6334634	mCV23951787_32492103	CRAMUS	CRAMUS_MOUSE	f	SNP	A	A	A	G
ss39442913	mCV23951787	ABI	CRAMUS_MOUSE	f	SNP	A	A	A	G
ss147971641	ENSMUSSNP5463232	ENSEMBL	ENSEMBL_Sanger	f	SNP	A	A		G
SNP Consensus Information
SNP					Consensus Type	129X1/SvJ	A/J	C57BL/6J	DBA/2J
rs4172539					SNP	A	A	A	G

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr16:34844558 () rs orientation: forward

Symbol	Name	Function Class
Cpgi8220	CpG island 8220	884 bp distal
Gm21691	predicted gene, 21691	1852 bp upstream
Hacd2	3-hydroxyacyl-CoA dehydratase 2	within coordinates
Rr404796	regulatory region 404796	1751 bp downstream
Rr515294	regulatory region 515294	1943 bp distal
Rr515295	regulatory region 515295	1750 bp distal
Rr515296	regulatory region 515296	867 bp distal
Rr515297	regulatory region 515297	289 bp proximal
Tssr138201	transcription start site region 138201	1748 bp downstream
Tssr138202	transcription start site region 138202	1709 bp downstream
Tssr138203	transcription start site region 138203	727 bp downstream
Tssr138204	transcription start site region 138204	1420 bp upstream
Tssr138205	transcription start site region 138205	1458 bp upstream