rs16790098 SNP Detail

Summary

• ID
  rs16790098
• 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
  Chr3:95432578 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                              TGAN TCCNNGAATG AAGTCTTGTT TACNGGTGTG
  CCTGATGGGC AAAGTCTAAG TTGTATAAGT CTGGGCGTTA GACATACTCA ACCTGGAGGA
  GTGAACTTTG TAATGTGAGA AATTCTCCag atggagacat gaagatcagc aattcatgac
  cagattntgc tacatagcat ggtcaagaaa agtctggact acaggggacc ccatctgaaa
  aaaaaaaaGG GGGGTGGggg gcaggaaaaa tggcggngat aggagcatgc gcagctccng
  caccacgctt ccgttcccaa gacccacatc aggagggtaa tanacaccta taacttcntc
  caggggatct gatgcaccct tctggcctcc aaagacatct ggactcatgt gaacaaccnc
  M
  cagagacatc cacacataca taattaaaag aaaaataaaG CTCTCAAAAA GAAAAAAATA
  TGTGTATTTT AAAACATGGT GGTCAGGTTA GATGTCATCA TGGTTTGGGC TTGNATTTC 
  
  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	129/Sv	BALB/cJ	FVB	MSM	PERA	SM/J
ss24742488	Ctss_AN7907_3	ROCHEBIO	RPAMM	f	SNP	A	A	A	C	A	A
SNP Consensus Information
SNP					Consensus Type	129/Sv	BALB/cJ	FVB	MSM	PERA	SM/J
rs16790098					SNP	A	A	A	C	A	A

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:95432578 () rs orientation: forward

Symbol	Name	Function Class
Ctss	cathepsin S	1519 bp upstream
Gm40096	predicted gene, 40096	768 bp upstream
Gm56808	predicted gene, 56808	382 bp upstream
Rr397840	regulatory region 397840	1335 bp upstream
Rr580964	regulatory region 580964	1162 bp distal
Rr580965	regulatory region 580965	393 bp distal
Rr580966	regulatory region 580966	185 bp distal
Rr580967	regulatory region 580967	1238 bp proximal
Rr580968	regulatory region 580968	1530 bp proximal
Tssr30563	transcription start site region 30563	1510 bp upstream
Tssr30564	transcription start site region 30564	1533 bp upstream
Tssr30565	transcription start site region 30565	1552 bp upstream
Tssr30566	transcription start site region 30566	1611 bp upstream
Tssr34486	transcription start site region 34486	428 bp upstream
Tssr34487	transcription start site region 34487	372 bp upstream