DNA Binding Motif

						

			
Accessions: UP00048A_2 (UniPROBE 20160601)

			
Names: alpha, Nr1b1, RAR alpha 1, RAR-alpha, Rara, RARalpha1, retinoic acid receptor, Retinoic acid receptor alpha
Organisms: Mus musculus
Libraries: UniPROBE 20160601 1
1 Hume MA, Barrera LA, Gisselbrecht SS, Bulyk ML. UniPROBE, update 2015: new tools and content for the online database of protein-binding microarray data on protein-DNA interactions. Nucleic Acids Res : (2015). [Pubmed]
Length: 16
Consensus: akagysGGGTCAakkm
Weblogo: 
PSSM: P0      A      C      G      T
01   0.45   0.24   0.15   0.16      a
02   0.13   0.09   0.49   0.29      k
03   0.43   0.24   0.16   0.17      a
04   0.16   0.15   0.52   0.18      g
05   0.02   0.47   0.06   0.45      y
06   0.02   0.36   0.45   0.17      s
07   0.05   0.10   0.82   0.03      G
08   0.01   0.01   0.91   0.08      G
09   0.01      0   0.90   0.08      G
10   0.04   0.03   0.03   0.90      T
11   0.02   0.85   0.04   0.09      C
12   0.80      0   0.16   0.03      A
13   0.39   0.24   0.18   0.19      a
14   0.09   0.16   0.45   0.30      k
15   0.12   0.22   0.28   0.37      k
16   0.31   0.30   0.20   0.20      m
Binding TFs: UP00048A (Zinc finger, C4 type (two domains))
Binding Sites: AAGGTCAA
AAGGTCAC
AAGGTCAT
AATGACCT
AGAGGTCA
AGGGGTCA
AGGTCAAA
AGGTCAAG
AGGTCACA
AGGTCACC
AGGTCACG
AGGTCAGC
AGGTCATC
CAAGGTCA
CGAGGTCA
GAAGGTCA
GAGGTCAA
GAGGTCAC
TAAGGTCA
CTGACCTC
			
Publications: Badis G, Berger M.F, Philippakis A.A, Talukder S, Gehrke A.R, Jaeger S.A, Chan E.T, Metzler G, Vedenko A, Chen X, Kuznetsov H, Wang C.F, Coburn D, Newburger D.E, Morris Q, Hughes T.R, Bulyk M.L. Diversity and complexity in DNA recognition by transcription factors. Science (New York, N.Y.) 324:1720-3 (2009). [Pubmed]

	
			


			

				

				
				
				
				

			

			

		

	
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These data are available AS IS and at your own risk. The EEAD/CSIC do not give any representation or warranty nor assume any liability or responsibility for the data nor the results posted (whether as to their accuracy, completeness, quality or otherwise). Access to these data is available free of charge for ordinary use in the course of research. Downloaded data have CC-BY-NC-SA license. FootprintDB is also available at RSAT::Plants, part of the INB/ELIXIR-ES resources portfolio.