rs16790105 SNP Detail

Summary

• ID
  rs16790105
• Variation Type
  SNP
• Alleles
  A/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
  Chr3:95433827 (GRCm39)
• SNP Orientation to the Genome
  forward

• SNP Reference Flanking Sequence

                                              TATGTTTGTG AGAGATAACT
  ATGTGATAGA ACTGTGTGTA TAAGTGTATG TGTATAACTC TGTGTGTGTG TGTGTGTGTG
  TGTGTGTGTG TGTTAAGATC CTTTGAACTA AAACAAAGGA ACTGATGAGT GAGTATTAGA
  CACAATAAGT CATACATGAC TTGTGTTAAA GGATAAGACA GGGCTTCCTA GGGAATCATG
  W
  AGCAACCTGA GATTTGAGGC GCCTGATCCA AATGTCTTTA TAACTAAATG TTTCCATCTC
  AGAACCGATG TGAATAAAAT GGACCACCAA AATGACACAG GGTTGGAGGA AAACTTTGTC
  CTGTTCTCTG CTGAGGTCAT TCTATTGATG GCCTCTACCA TGGAGCCCTC TGGGCAGCTC
  ATTACACACA AACTGTCCCA                                            
  
  W = A/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	129S1/SvImJ	A/HeJ	A/J	AKR/J	BALB/cByJ	BALB/cJ	BTBR T<+> Itpr3/J	C3H/HeJ	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF	MOLF/EiJ	MRL/MpJ	NOD/ShiLtJ	NZW/LacJ	PERA	PWD/PhJ	SM/J	SPRET/EiJ	WSB/EiJ
ss24742502	Ctss_AN7909_4	ROCHEBIO	RPAMM	f	SNP		T		T	T	T			A				A		T			T		T	A
ss46775204	NES10756269	PERLEGEN	MM_PANEL2	f	SNP	T		T	T	T		T	T	A	T	T	T		A		T	T		A			A
SNP Consensus Information
SNP					Consensus Type	129S1/SvImJ	A/HeJ	A/J	AKR/J	BALB/cByJ	BALB/cJ	BTBR T<+> Itpr3/J	C3H/HeJ	CAST/EiJ	DBA/2J	FVB/NJ	KK/HlJ	MOLF	MOLF/EiJ	MRL/MpJ	NOD/ShiLtJ	NZW/LacJ	PERA	PWD/PhJ	SM/J	SPRET/EiJ	WSB/EiJ
rs16790105					SNP	T	T	T	T	T	T	T	T	A	T	T	T	A	A	T	T	T	T	A	T	A	A

Additional submitted assays for this SNP, where the strain of origin for observed alleles is not specified by the submitter

Assay ID	Submitter SNP ID	Submitter Handle	Population	ss orientation	Variation Type	Alleles
ss46775204	NES10756269	PERLEGEN	MM_PANEL	f	SNP	A/T

Gene/Marker
Associations
and
Function
Classes

MGI genes/markers associated with the SNP

Location: Chr3:95433827 () rs orientation: forward

Symbol	Name	Function Class
Ctss	cathepsin S	270 bp upstream
Gm56808	predicted gene, 56808	1631 bp upstream
Rr397840	regulatory region 397840	86 bp upstream
Rr580965	regulatory region 580965	1642 bp distal
Rr580966	regulatory region 580966	1434 bp distal
Rr580967	regulatory region 580967	within coordinates
Rr580968	regulatory region 580968	281 bp proximal
Tssr30563	transcription start site region 30563	261 bp upstream
Tssr30564	transcription start site region 30564	284 bp upstream
Tssr30565	transcription start site region 30565	303 bp upstream
Tssr30566	transcription start site region 30566	362 bp upstream
Tssr34486	transcription start site region 34486	1677 bp upstream
Tssr34487	transcription start site region 34487	1621 bp upstream