rs16790023 SNP Detail

Summary

• ID
  rs16790023
• Variation Type
  SNP
• Alleles
  A/G

• 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
  Chr3:95433046 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

        CCCC CCCCGACACA CACACAATAA TTGTAAAAAT AGATAAACCC TTGAAACATT
  TTCATATGAA ACATATTACN CATGAGATCT AGGAATTNTT TCGAAATAAT CTGGGAAATG
  GGAGCATAAA TGAAACAAGT TGGCAGTTCC AGGANATTAT TGAAACAGGA GTTCCTCNCC
  TCNCTGCCTT Nttgttttgn attttgagga caaggtttta tgtaacccag gctggcctga
  R
  actagcacta tACCTGGCCA GATGTTCTAT TTCACCATTT TAAATTTTCA GTAAAAAAAA
  AAAATCAGTA TAAGCAAAGT NAaaacaaac aaacaaacaa agaaaaaaac CAATGGAAAA
  CTGTGANAAG GCAGGCGGAG TGTACGGCAC CACCANAGAC TGCTAGCCAG AACAGTAAAA
  ACAGGCCCTG CAGATCACCA AGAAAACCGA TAAATACACT AGAAACNTGA GCAAAATAAT
  T                                                                
  
  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	BUB	C57BL/6J	DBA/2J	FVB	LG/J	LP/J	MSM	NZB/BlNJ	NZW/Lac
ss24742398	Ctss_AN7916_5	ROCHEBIO	RPAMM	f	SNP	A	A	A	A	A	A	G	A	A
SNP Consensus Information
SNP					Consensus Type	BUB	C57BL/6J	DBA/2J	FVB	LG/J	LP/J	MSM	NZB/BlNJ	NZW/Lac
rs16790023					SNP	A	A	A	A	A	A	G	A	A

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:95433046 () rs orientation: forward

Symbol	Name	Function Class
Ctss	cathepsin S	1051 bp upstream
Gm40096	predicted gene, 40096	1236 bp upstream
Gm56808	predicted gene, 56808	850 bp upstream
Rr397840	regulatory region 397840	867 bp upstream
Rr580964	regulatory region 580964	1630 bp distal
Rr580965	regulatory region 580965	861 bp distal
Rr580966	regulatory region 580966	653 bp distal
Rr580967	regulatory region 580967	770 bp proximal
Rr580968	regulatory region 580968	1062 bp proximal
Tssr30563	transcription start site region 30563	1042 bp upstream
Tssr30564	transcription start site region 30564	1065 bp upstream
Tssr30565	transcription start site region 30565	1084 bp upstream
Tssr30566	transcription start site region 30566	1143 bp upstream
Tssr34486	transcription start site region 34486	896 bp upstream
Tssr34487	transcription start site region 34487	840 bp upstream