PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

LOC_Os09g29930.3

Organism

Oryza sativa subsp. japonica

Taxonomic ID

39947

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza; Oryza sativa

Family

bHLH

Protein Properties

Length: 144aa MW: 16074 Da PI: 9.1399

Description

bHLH family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
LOC_Os09g29930.3	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	HLH	58.5	1.2e-18	56	105	2	55
HHHHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS HLH 2 rrahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 r +h++ E+rRR++iN++f+ LrellP++ ++K +Ka+ L +++eYI+ Lq LOC_Os09g29930.3 56 RSKHSATEQRRRSKINDRFQILRELLPHS----DQKRDKATFLLEVIEYIRFLQ 105 899***********************9....9*****************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF47459	3.53E-20	51	123	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Gene3D	G3DSA:4.10.280.10	3.7E-25	52	125	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
CDD	cd00083	6.32E-14	52	109	No hit	No description
PROSITE profile	PS50888	16.952	54	104	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
Pfam	PF00010	4.4E-16	56	105	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain
SMART	SM00353	2.6E-13	60	110	IPR011598	Myc-type, basic helix-loop-helix (bHLH) domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006351	Biological Process	transcription, DNA-templated
GO:0005634	Cellular Component	nucleus
GO:0046983	Molecular Function	protein dimerization activity

Sequence ? help Back to Top
Protein Sequence Length: 144 aa Download sequence Send to blast
MDSGSRSSGG AGFDDDDGVA ARREVSSSLK ELTVRVDGKG GSCSGSGTDQ RPSSPRSKHS 60 ATEQRRRSKI NDRFQILREL LPHSDQKRDK ATFLLEVIEY IRFLQEKVQK FEASVPEWNQ 120 ENAKILPWVI TTHFYPPKPA LLD*

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Os.16741	1e-165	callus\| flower\| leaf\| panicle\| root\| seed\| stem

Expression -- Microarray ? help Back to Top
Source	ID	E-value
GEO	32987105	1e-165

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed constitutively in roots. {ECO:0000269\|PubMed:12679534}.

Functional Description ? help Back to Top
Source	Description
UniProt	Positive brassinosteroid-signaling protein. Transcription factor that bind specifically to the DNA sequence 5'-CANNTG-3'(E box). Can bind individually to the promoter as a homodimer or synergistically as a heterodimer with BZR2/BES1. Does not itself activate transcription but enhances BZR2/BES1-mediated target gene activation. {ECO:0000269\|PubMed:15680330}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00219	DAP	Transfer from AT1G69010	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	LOC_Os09g29930.3

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Repressed by cold treatment. {ECO:0000269\|PubMed:12679534}.

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	Retrieve

Phenotype -- Mutation ? help Back to Top
Source	ID
RiceGE	Os09g29930

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AK071315	0.0	AK071315.1 Oryza sativa Japonica Group cDNA clone:J023084K14, full insert sequence.
GenBank	EU837261	0.0	EU837261.1 Oryza sativa Japonica Group clone KCB846A08 bHLH transcription factor mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015612524.1	9e-86	transcription factor BIM3 isoform X1
Refseq	XP_015612525.1	9e-87	transcription factor BIM2 isoform X2
Swissprot	Q9LEZ3	2e-34	BIM1_ARATH; Transcription factor BIM1
TrEMBL	B7EJ81	6e-87	B7EJ81_ORYSJ; cDNA clone:J023084K14, full insert sequence
STRING	ORUFI09G14830.1	1e-85	(Oryza rufipogon)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G08130.3	2e-37	bHLH family protein

Link Out ? help Back to Top
Phytozome	LOC_Os09g29930.3

Publications ? help Back to Top
Liang T, et al. UVR8 Interacts with BES1 and BIM1 to Regulate Transcription and Photomorphogenesis in Arabidopsis. Dev. Cell, 2018. 44(4): p. 512-523.e5 [PMID:29398622]