rs16790021 SNP Detail

Summary

• ID
  rs16790021
• 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
  Chr3:95432988 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

      CCCCCC CCGACACACA CACAATAATT GTAAAAATAG ATAAACCCTT GAAACATTTT
  CATATGAAAC ATATTACNCA TGAGATCTAG GAATTNTTTC GAAATAATCT GGGAAATGGG
  AGCATAAATG AAACAAGTTG GCAGTTCCAG GANATTATTG AAACAGGAGT TCCTCNCCTC
  M
  CTGCCTTNtt gttttgnatt ttgaggacaa ggttttatgt aacccaggct ggcctganac
  tagcactatA CCTGGCCAGA TGTTCTATTT CACCATTTTA AATTTTCAGT AAAAAAAAAA
  AATCAGTATA AGCAAAGTNA aaacaaacaa acaaacaaag aaaaaaacCA ATGGAAAACT
  GTGANAAGGC AGGCGGAGTG TACGGCACCA CCANAGACTG CTAGCCAGAA CAGTAAAAAC
  AGGCCCTGCA GATCACCAAG AAAACCGATA AATACACTAG AAACNTGAGC AAAATAATT 
  
  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	LP/J	MSM
ss24742396	Ctss_AN7916_3	ROCHEBIO	RPAMM	f	SNP	C	C	A
SNP Consensus Information
SNP					Consensus Type	C3H/HeJ	LP/J	MSM
rs16790021					SNP	C	C	A

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:95432988 () rs orientation: forward

Symbol	Name	Function Class
Ctss	cathepsin S	1109 bp upstream
Gm40096	predicted gene, 40096	1178 bp upstream
Gm56808	predicted gene, 56808	792 bp upstream
Rr397840	regulatory region 397840	925 bp upstream
Rr580964	regulatory region 580964	1572 bp distal
Rr580965	regulatory region 580965	803 bp distal
Rr580966	regulatory region 580966	595 bp distal
Rr580967	regulatory region 580967	828 bp proximal
Rr580968	regulatory region 580968	1120 bp proximal
Tssr30563	transcription start site region 30563	1100 bp upstream
Tssr30564	transcription start site region 30564	1123 bp upstream
Tssr30565	transcription start site region 30565	1142 bp upstream
Tssr30566	transcription start site region 30566	1201 bp upstream
Tssr34486	transcription start site region 34486	838 bp upstream
Tssr34487	transcription start site region 34487	782 bp upstream