rs16790019 SNP Detail

Summary

• ID
  rs16790019
• Variation Type
  SNP
• Alleles
  A/C

• 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
  Chr3:95432885 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                                     CCC CCCCCGACAC
  ACACACAATA ATTGTAAAAA TAGATAAACC CTTGAAACAT TTTCATATGA AACATATTAC
  M
  CATGAGATCT AGGAATTNTT TCGAAATAAT CTGGGAAATG GGAGCATAAA TGAAACAAGT
  TGGCAGTTCC AGGANATTAT TGAAACAGGA GTTCCTCNCC TCNCTGCCTT Nttgttttgn
  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                   
  
  M = A/C
  

  
  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	C3H/HeJ	DBA/2J	LP/J	MSM
ss24742394	Ctss_AN7916_1	ROCHEBIO	RPAMM	f	SNP	C	C	C	A
SNP Consensus Information
SNP					Consensus Type	C3H/HeJ	DBA/2J	LP/J	MSM
rs16790019					SNP	C	C	C	A

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:95432885 () rs orientation: forward

Symbol	Name	Function Class
Ctss	cathepsin S	1212 bp upstream
Gm40096	predicted gene, 40096	1075 bp upstream
Gm56808	predicted gene, 56808	689 bp upstream
Rr397840	regulatory region 397840	1028 bp upstream
Rr580964	regulatory region 580964	1469 bp distal
Rr580965	regulatory region 580965	700 bp distal
Rr580966	regulatory region 580966	492 bp distal
Rr580967	regulatory region 580967	931 bp proximal
Rr580968	regulatory region 580968	1223 bp proximal
Tssr30563	transcription start site region 30563	1203 bp upstream
Tssr30564	transcription start site region 30564	1226 bp upstream
Tssr30565	transcription start site region 30565	1245 bp upstream
Tssr30566	transcription start site region 30566	1304 bp upstream
Tssr34486	transcription start site region 34486	735 bp upstream
Tssr34487	transcription start site region 34487	679 bp upstream