rs52449907 SNP Detail

Summary

• ID
  rs52449907
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  128
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser
  

Genome Location and Flanking Sequence

• Location
  Chr6:52221259 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                        GCCTTCACTC AGTACACACC GTCAGCATAC TGCCAGAGGG
  CCCTCAGCAG GGTAGGGATG CTAGTTTAGG AAGGGTAGAG GAAAGAGAGG CTACCTTAAG
  Y
  CTCAGGCAGG ATCCATTTGT TCACCCTCAC CTTTAAGAAA CACACACACA CACACACACA
  CACACACACA CACACACACA CACACACACA CACAACTTT                       
  
  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	129X1/SvJ	DBA/2J	LG/J	SM/J
ss133191161	ENSMUSSNP5604726	ENSEMBL	ENSEMBL_Sanger	f	SNP	T	T
ss321799673	CHEV_6_52194278	CHEVERUD	SCREENING_POP	f	SNP			C	T
SNP Consensus Information
SNP					Consensus Type	129X1/SvJ	DBA/2J	LG/J	SM/J
rs52449907					SNP	T	T	C	T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr6:52221259 () rs orientation: forward

Symbol	Name	Function Class
Cpgi17436	CpG island 17436	575 bp proximal
Gm56036	predicted gene, 56036	1730 bp upstream
Hoxa11	homeobox A11	within coordinates
Hoxa11os	homeobox A11, opposite strand	754 bp upstream
Rr146302	regulatory region 146302	within coordinates
Rr379359	regulatory region 379359	142 bp downstream
Tssr1847	transcription start site region 1847	1645 bp upstream
Tssr56517	transcription start site region 56517	722 bp upstream
Tssr56518	transcription start site region 56518	745 bp upstream
Tssr56519	transcription start site region 56519	1686 bp upstream
Tssr56520	transcription start site region 56520	1716 bp upstream
Tssr61029	transcription start site region 61029	1469 bp downstream
Tssr61030	transcription start site region 61030	1485 bp downstream
Tssr61031	transcription start site region 61031	1517 bp downstream