rs49004501 SNP Detail

Summary

• ID
  rs49004501
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  127
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser
  

Genome Location and Flanking Sequence

• Location
  Chr6:52183420 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              GGTTTGGACG CTTTTCCCTA
  AGCTGCGGGA GAAGCAGGCT GGAATAAAAC TTGGGGAGCA GACAAGGGCA CCAGGGGGCA
  AAGCCAATAG AGGTTACAAC GCTGGCCTGG TCCCTGCACT GGAGTCTACT CGCCCGCTTT
  GGCCTCAGAG TCTTCCCCGC TGGCCTGCGT GGAGTTGATG AGTTTATTTT CCTTTTTCCA
  Y
  TTCATGCGCC GATTCTGGAA CCAGATCTTG ATCTGGCGCT CGGTGAGGCA AAGCGCGTTA
  GCGATCTCGA TGCGGCGCCG CCGAGTCAGG TAGCGGTTGA AGTGGAATTC CTTCTCAAGC
  TCCAGTGTCT GGTAGCGCGT GTAGGTCTGG CGGCCTCTGC GCCCGTGACT CCCATACACG
  GCACCTGTGG GCAGAAATGA                                            
  
  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	A/J	MSM/Ms
ss133191044	ENSMUSSNP1905988	ENSEMBL	ENSEMBL_Sanger	f	SNP	C	T
SNP Consensus Information
SNP					Consensus Type	A/J	MSM/Ms
rs49004501					SNP	C	T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr6:52183420 () rs orientation: forward

Symbol	Name	Function Class
Cpgi17423	CpG island 17423	1568 bp distal
Cpgi17424	CpG island 17424	within coordinates
Cpgi17425	CpG island 17425	1733 bp proximal
Gm28308	predicted gene 28308	within coordinates
Hoxa3	homeobox A3	within coordinates
Hoxa5	homeobox A5	1983 bp upstream
Hoxa6	homeobox A6	within coordinates
Hoxaas3	Hoxa cluster antisense RNA 3	within coordinates
Tssr60995	transcription start site region 60995	1977 bp upstream