rs16790104 SNP Detail

Summary

• ID
  rs16790104
• Variation Type
  SNP
• Alleles
  C/T

• Created in dbSNP Build
  123
• Last Updated in dbSNP Build
  137
• Additional Resources
  JBrowse Genome Browser | Ensembl SNPView | UCSC Browser
  

Genome Location and Flanking Sequence

• Location
  Chr3:95433810 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              CCATGTGTGT ATAATTGTAT
  GTTTGTGAGA GATAACTATG TGATAGAACT GTGTGTATAA GTGTATGTGT ATAACTCTGT
  GTGTGTGTGT GTGTGTGTGT GTGTGTGTGT TAAGATCCTT TGAACTAAAA CAAAGGAACT
  GATGAGTGAG TATTAGACAC AATAAGTCAT ACATGACTTG TGTTAAAGGA TAAGACAGGG
  Y
  TTCCTAGGGA ATCATGTAGC AACCTGAGAT TTGAGGCGCC TGATCCAAAT GTCTTTATAA
  CTAAATGTTT CCATCTCAGA ACCGATGTGA ATAAAATGGA CCACCAAAAT GACACAGGGT
  TGGAGGAAAA CTTTGTCCTG TTCTCTGCTG AGGTCATTCT ATTGATGGCC TCTACCATGG
  AGCCCTCTGG GCAGCTCATT                                            
  
  Y = C/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	A/HeJ	AKR/J	BALB/cJ	CAST/EiJ	MOLF	MRL/MpJ	PERA	SM/J	SPRET/EiJ
ss24742501	Ctss_AN7909_3	ROCHEBIO	RPAMM	f	SNP	C	C	C	T	C	C	C	C	T
SNP Consensus Information
SNP					Consensus Type	A/HeJ	AKR/J	BALB/cJ	CAST/EiJ	MOLF	MRL/MpJ	PERA	SM/J	SPRET/EiJ
rs16790104					SNP	C	C	C	T	C	C	C	C	T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:95433810 () rs orientation: forward

Symbol	Name	Function Class
Ctss	cathepsin S	287 bp upstream
Gm40096	predicted gene, 40096	2000 bp upstream
Gm56808	predicted gene, 56808	1614 bp upstream
Rr397840	regulatory region 397840	103 bp upstream
Rr580965	regulatory region 580965	1625 bp distal
Rr580966	regulatory region 580966	1417 bp distal
Rr580967	regulatory region 580967	6 bp proximal
Rr580968	regulatory region 580968	298 bp proximal
Tssr30563	transcription start site region 30563	278 bp upstream
Tssr30564	transcription start site region 30564	301 bp upstream
Tssr30565	transcription start site region 30565	320 bp upstream
Tssr30566	transcription start site region 30566	379 bp upstream
Tssr34486	transcription start site region 34486	1660 bp upstream
Tssr34487	transcription start site region 34487	1604 bp upstream