rs16790022 SNP Detail

Summary

• ID
  rs16790022
• Variation Type
  SNP
• Alleles
  A/T

• Created in dbSNP Build
  123
• Last Updated in dbSNP Build
  123
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser
  

Genome Location and Flanking Sequence

• Location
  Chr3:95433005 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                                     CCC CCCCCGACAC
  ACACACAATA ATTGTAAAAA TAGATAAACC CTTGAAACAT TTTCATATGA AACATATTAC
  NCATGAGATC TAGGAATTNT TTCGAAATAA TCTGGGAAAT GGGAGCATAA ATGAAACAAG
  TTGGCAGTTC CAGGANATTA TTGAAACAGG AGTTCCTCNC CTCNCTGCCT TNttgttttg
  W
  attttgagga caaggtttta tgtaacccag gctggcctga nactagcact atACCTGGCC
  AGATGTTCTA TTTCACCATT TTAAATTTTC AGTAAAAAAA AAAAATCAGT ATAAGCAAAG
  TNAaaacaaa caaacaaaca aagaaaaaaa cCAATGGAAA ACTGTGANAA GGCAGGCGGA
  GTGTACGGCA CCACCANAGA CTGCTAGCCA GAACAGTAAA AACAGGCCCT GCAGATCACC
  AAGAAAACCG ATAAATACAC TAGAAACNTG AGCAAAATAA TT                   
  
  W = A/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	LP/J	MSM	NZW/Lac
ss24742397	Ctss_AN7916_4	ROCHEBIO	RPAMM	f	SNP	A	T	A
SNP Consensus Information
SNP					Consensus Type	LP/J	MSM	NZW/Lac
rs16790022					SNP	A	T	A

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:95433005 () rs orientation: forward

Symbol	Name	Function Class
Ctss	cathepsin S	1092 bp upstream
Gm40096	predicted gene, 40096	1195 bp upstream
Gm56808	predicted gene, 56808	809 bp upstream
Rr397840	regulatory region 397840	908 bp upstream
Rr580964	regulatory region 580964	1589 bp distal
Rr580965	regulatory region 580965	820 bp distal
Rr580966	regulatory region 580966	612 bp distal
Rr580967	regulatory region 580967	811 bp proximal
Rr580968	regulatory region 580968	1103 bp proximal
Tssr30563	transcription start site region 30563	1083 bp upstream
Tssr30564	transcription start site region 30564	1106 bp upstream
Tssr30565	transcription start site region 30565	1125 bp upstream
Tssr30566	transcription start site region 30566	1184 bp upstream
Tssr34486	transcription start site region 34486	855 bp upstream
Tssr34487	transcription start site region 34487	799 bp upstream