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

OBART10G17410.1

Organism

Oryza barthii

Taxonomic ID

65489

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

Family

HB-other

Protein Properties

Length: 96aa MW: 10045.1 Da PI: 10.562

Description

HB-other family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
OBART10G17410.1	genome	OGE	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	35.2	2.2e-11	52	96	2	46
T--SS--HHHHHHHHHHHHHSSS--HHHHHHHHHHCTS-HHHHHH CS Homeobox 2 rkRttftkeqleeLeelFeknrypsaeereeLAkklgLterqVkv 46 rk+ +++k+q +Le+ F+k+++++ ++++ LA++l+L+ rqV v OBART10G17410.1 52 RKKLRLSKDQAAVLEDTFNKHNTLNPKQKAALARQLNLKPRQVEV 96 788899*************************************86 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Pfam	PF04618	7.4E-7	7	31	IPR006712	HD-ZIP protein, N-terminal
SuperFamily	SSF46689	3.04E-10	37	96	IPR009057	Homeodomain-like
Gene3D	G3DSA:1.10.10.60	1.1E-12	39	96	IPR009057	Homeodomain-like
PROSITE profile	PS50071	10.009	48	96	IPR001356	Homeobox domain
Pfam	PF00046	8.7E-9	52	96	IPR001356	Homeobox domain
CDD	cd00086	1.00E-9	52	96	No hit	No description

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 96 aa Download sequence Send to blast
LDHPAAARRS GEPAVSSPNS TLSSLSGKRG VPSTAAAAVG GSDDEDSGDG SRKKLRLSKD 60 QAAVLEDTFN KHNTLNPKQK AALARQLNLK PRQVEV

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	50	56	SRKKLRL

Functional Description ? help Back to Top
Source	Description
UniProt	Probable transcription repressor involved leaf development. Binds to the DNA sequence 5'-CAAT[GC]ATTG-3'. May act as a regulatory switch to specify provascular cell fate. {ECO:0000269\|PubMed:10732669, ECO:0000269\|PubMed:10934011, ECO:0000269\|PubMed:9076993}.
UniProt	Probable transcription repressor involved leaf development. Binds to the DNA sequence 5'-CAAT[GC]ATTG-3'. May act as a regulatory switch to specify provascular cell fate. {ECO:0000269\|PubMed:10732669, ECO:0000269\|PubMed:9076993}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By auxin and sucrose in primary root apical region. By wounding in leaves. {ECO:0000269\|PubMed:10732669}.
UniProt	INDUCTION: By auxin and sucrose in primary root apical region. By wounding in leaves. {ECO:0000269\|PubMed:10934011}.

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

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AK065404	3e-96	AK065404.1 Oryza sativa Japonica Group cDNA clone:J013006I17, full insert sequence.
GenBank	CT832944	3e-96	CT832944.1 Oryza sativa (indica cultivar-group) cDNA clone:OSIGCRA107F07, full insert sequence.
GenBank	CT832945	3e-96	CT832945.1 Oryza sativa (indica cultivar-group) cDNA clone:OSIGCRA120M16, full insert sequence.
GenBank	X96681	3e-96	X96681.2 Oryza sativa mRNA for DNA-binding protein (Oshox1 gene).

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_002467488.1	9e-35	homeobox-leucine zipper protein HOX1
Swissprot	Q40691	1e-32	HOX1_ORYSI; Homeobox-leucine zipper protein HOX1
Swissprot	Q7XC54	1e-32	HOX1_ORYSJ; Homeobox-leucine zipper protein HOX1
TrEMBL	A0A0D3HG73	3e-61	A0A0D3HG73_9ORYZ; Uncharacterized protein
STRING	OBART10G17410.1	5e-62	(Oryza barthii)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP2587	38	89

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G06710.1	1e-19	homeobox from Arabidopsis thaliana

Publications ? help Back to Top
Scarpella E,Boot KJ,Rueb S,Meijer AH The procambium specification gene Oshox1 promotes polar auxin transport capacity and reduces its sensitivity toward inhibition. Plant Physiol., 2002. 130(3): p. 1349-60 [PMID:12428000] Scarpella E,Rueb S,Meijer AH The RADICLELESS1 gene is required for vascular pattern formation in rice. Development, 2003. 130(4): p. 645-58 [PMID:12505996] Rice Chromosome 10 Sequencing Consortium In-depth view of structure, activity, and evolution of rice chromosome 10. Science, 2003. 300(5625): p. 1566-9 [PMID:12791992] Kikuchi S, et al. Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice. Science, 2003. 301(5631): p. 376-9 [PMID:12869764] Scarpella E,Simons EJ,Meijer AH Multiple regulatory elements contribute to the vascular-specific expression of the rice HD-Zip gene Oshox1 in Arabidopsis. Plant Cell Physiol., 2005. 46(8): p. 1400-10 [PMID:15964905] Meijer AH,Ouwerkerk PB,Hoge JH Vectors for transcription factor cloning and target site identification by means of genetic selection in yeast. Yeast, 1998. 14(15): p. 1407-15 [PMID:9848232]