DNA Binding Motif

						

			
Accessions: UP00222A_1 (UniPROBE 20160601)

			
Names: AI385728, AI987804, Hepatocyte nuclear factor 1-beta, hepatocyte nuclear factor-1 beta, Hnf-1b, HNF-1beta, Hnf1b, Hnf1beta, Homeoprotein LFB3, Tcf-2, Tcf2, transcription factor 2, Variant hepatic nuclear factor 1, vHNF1
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: 17
Consensus: dkykGTTAACTAryybt
Weblogo: 
PSSM: P0      A      C      G      T
01   0.31   0.14   0.26   0.28      d
02   0.16   0.18   0.37   0.29      k
03   0.14   0.40   0.14   0.32      y
04   0.17   0.19   0.29   0.34      k
05   0.06   0.05   0.84   0.05      G
06   0.06   0.03   0.02   0.89      T
07   0.01   0.01      0   0.98      T
08   0.96      0      0   0.03      A
09   0.98   0.01      0   0.01      A
10   0.01   0.95   0.01   0.03      C
11   0.01   0.15   0.02   0.82      T
12   0.90   0.01   0.03   0.06      A
13   0.28   0.13   0.56   0.03      r
14   0.16   0.36   0.21   0.26      y
15   0.22   0.34   0.12   0.32      y
16   0.05   0.32   0.38   0.25      b
17   0.15   0.16   0.15   0.53      t
Binding TFs: UP00222A (Homeobox domain)
Binding Sites: AACTAACC
ACTAACTA
ACTAGTTA
AGGTTAAC
AGTTAACC
AGTTAACT
ATAACTAG
ATTAACTA
CGGTTAAC
CTAACTAG
CTAGTTAA
CTGGTTAA
CTTAACTA
GGTTAACC
GTAGTTAA
GTTAACCA
GTTAGTTA
TAACTAGA
TTAACCAA
TTAACTAA
			
Publications: Berger M.F, Badis G, Gehrke A.R, Talukder S, Philippakis A.A, Peña-Castillo L, Alleyne T.M, Mnaimneh S, Botvinnik O.B, Chan E.T, Khalid F, Zhang W, Newburger D, Jaeger S.A, Morris Q.D, Bulyk M.L, Hughes T.R. Variation in homeodomain DNA binding revealed by high-resolution analysis of sequence preferences. Cell 133:1266-76 (2008). [Pubmed]

	
			


			

				

				
				
				
				

			

			

		

	
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