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

Pavir.5KG645700.1.p

Organism

Panicum virgatum

Taxonomic ID

38727

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Panicinae; Panicum

Family

WOX

Protein Properties

Length: 215aa MW: 24203.1 Da PI: 8.6332

Description

WOX family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Pavir.5KG645700.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	Homeobox	63.3	3.6e-20	11	72	1	57
TT--SS--HHHHHHHHHHHHH.SSS--HHHHHHHHHHC....TS-HHHHHHHHHHHHHHHHC CS Homeobox 1 rrkRttftkeqleeLeelFek.nrypsaeereeLAkkl....gLterqVkvWFqNrRakekk 57 ++ R+++t+eq+++L elF+ r+p++e++++++++l +++ ++V++WFqN++a+e++ Pavir.5KG645700.1.p 11 KCGRWNPTAEQVKVLTELFRAgLRTPTTEQIQRISTHLsafgKVESKNVFYWFQNHKARERH 72 568***************99************************************95 PP
2	Wus_type_Homeobox	110.8	7.4e-36	12	73	3	64
Wus_type_Homeobox 3 rtRWtPtpeQikiLeelyksGlrtPnkeeiqritaeLeeyGkiedkNVfyWFQNrkaRerqk 64 + RW+Pt+eQ+k+L+el+++GlrtP++e+iqri+++L+++Gk+e+kNVfyWFQN+kaRer++ Pavir.5KG645700.1.p 12 CGRWNPTAEQVKVLTELFRAGLRTPTTEQIQRISTHLSAFGKVESKNVFYWFQNHKARERHH 73 78**********************************************************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SMART	SM00389	8.5E-4	10	77	IPR001356	Homeobox domain
Pfam	PF00046	1.9E-17	12	72	IPR001356	Homeobox domain
SuperFamily	SSF46689	1.24E-11	13	76	IPR009057	Homeodomain-like
Gene3D	G3DSA:1.10.10.60	2.5E-7	14	71	IPR009057	Homeodomain-like
CDD	cd00086	3.29E-4	14	74	No hit	No description
PROSITE profile	PS50071	10.09	18	73	IPR001356	Homeobox domain

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

Sequence ? help Back to Top
Protein Sequence Length: 215 aa Download sequence Send to blast
MEALSGRVGV KCGRWNPTAE QVKVLTELFR AGLRTPTTEQ IQRISTHLSA FGKVESKNVF 60 YWFQNHKARE RHHHKKRRRG ASSPDDSGSG SNNEDDGRAA SREPPAAPDL ALQPPESKRE 120 ARSYHHHRLL TCYVRDVMEQ QAAAEAAALW ERPTREVETL ELFPLKSYVD LEADNKVRYV 180 RSGAASEQCR EFSFFDVAGG RDPPLELRLC SFGP*

Expression -- Description ? help Back to Top
Source	Description
Uniprot	DEVELOPMENTAL STAGE: During embryogenesis and crown root formation, it is expressed prior to the morphological differentiation of the root. {ECO:0000269\|PubMed:12904206}.
Uniprot	TISSUE SPECIFICITY: Specifically expressed in the central cells of the quiescent center (QC) of the root. {ECO:0000269\|PubMed:12904206}.

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor which may be involved in the specification and maintenance of the stem cells (QC cells) in the root apical meristem (RAM). {ECO:0000269\|PubMed:12904206}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Pavir.5KG645700.1.p

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	AM490239	0.0	AM490239.1 Zea mays mRNA for putative wuschel homeobox protein (wox5B gene).

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_025818160.1	1e-128	WUSCHEL-related homeobox 9-like
Swissprot	Q8W0F1	1e-120	WOX9_ORYSJ; WUSCHEL-related homeobox 9
TrEMBL	A0A3L6SPG4	1e-127	A0A3L6SPG4_PANMI; WUSCHEL-related homeobox 9
STRING	Pavir.Ea03790.1.p	1e-158	(Panicum virgatum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP9411	36	43

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G11260.1	1e-31	WUSCHEL related homeobox 5

Link Out ? help Back to Top
Phytozome	Pavir.5KG645700.1.p

Publications ? help Back to Top
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] Li S, et al. OsFIE2 plays an essential role in the regulation of rice vegetative and reproductive development. New Phytol., 2014. 201(1): p. 66-79 [PMID:24020752] Chu H, et al. A CLE-WOX signalling module regulates root meristem maintenance and vascular tissue development in rice. J. Exp. Bot., 2013. 64(17): p. 5359-69 [PMID:24043854] Wang W, et al. Dwarf Tiller1, a Wuschel-related homeobox transcription factor, is required for tiller growth in rice. PLoS Genet., 2014. 10(3): p. e1004154 [PMID:24625559] Coudert Y, et al. Identification of CROWN ROOTLESS1-regulated genes in rice reveals specific and conserved elements of postembryonic root formation. New Phytol., 2015. 206(1): p. 243-54 [PMID:25442012]