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.1NG093700.1.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

GRAS

Protein Properties

Length: 145aa MW: 15269.2 Da PI: 5.1629

Description

GRAS family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Pavir.1NG093700.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	GRAS	123.2	3e-38	1	144	234	374
GRAS 234 lsPkvvvvveqeadhnse....sFlerflealeyysalfdsleaklpreseerikvErellgreivnvvacegaerrerhetlekWrerl 319 ++P vv+++e+ea +s+ ++ ++++ a++yysa+fd+lea++p+ s +r vE+e+lg+ei vva +a r + + +W + Pavir.1NG093700.1.p 1 MNPSVVTLAEREAGIGSNcpaeDLHRGVAAAMDYYSAVFDALEATAPPGSADRLAVEQEVLGQEIDAVVAPGHAG--RRARGFDSWATAA 88 69********77765545559***********************************************9..567799*** PP GRAS 320 eeaGFkpvplsekaakqaklllrkvk.sdgyrveeesgslvlgWkdrpLvsvSaWr 374 ++aG++p pls +a++qa+lllr ++ s+gy ee +g+ +lgW++rpL+svS+W+ Pavir.1NG093700.1.p 89 RAAGLSPRPLSAFAVSQARLLLRLHYpSEGYVAEEARGACFLGWQTRPLMSVSSWQ 144 *****************************************************6 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50985	18.499	1	123	IPR005202	Transcription factor GRAS
Pfam	PF03514	1.0E-35	1	144	IPR005202	Transcription factor GRAS

Sequence ? help Back to Top
Protein Sequence Length: 145 aa Download sequence Send to blast
MNPSVVTLAE REAGIGSNCP AEDLHRGVAA AMDYYSAVFD ALEATAPPGS ADRLAVEQEV 60 LGQEIDAVVA PGHAGRRARG FDSWATAARA AGLSPRPLSA FAVSQARLLL RLHYPSEGYV 120 AEEARGACFL GWQTRPLMSV SSWQ*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5b3g_A	8e-16	1	143	241	378	Protein SCARECROW
5b3h_A	7e-16	1	143	240	377	Protein SCARECROW
5b3h_D	7e-16	1	143	240	377	Protein SCARECROW
Search in ModeBase

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in a small number of epidermal or subepidermal cells at the leaf axils, in axillary meristems and the entire tiller buds. Undetected in the shoot apical meristem. {ECO:0000269\|PubMed:12687001}.

Functional Description ? help Back to Top
Source	Description
UniProt	Putative transcription regulator that controls rice tillering by initiating axillary buds and promoting their outgrowth. Rice tiller is a specialized grain-bearing branch that is formed on the unelongated basal internode and grows independently of the mother stem (culm) by means of its own adventitious roots. {ECO:0000269\|PubMed:12687001}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Pavir.1NG093700.1.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	KJ727692	6e-89	KJ727692.1 Zea mays clone pUT5631 GRAS transcription factor (GRAS17) gene, partial cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_025806722.1	1e-89	protein MONOCULM 1
Swissprot	Q84MM9	1e-51	MOC_ORYSJ; Protein MONOCULM 1
TrEMBL	A0A3L6RVP0	2e-89	A0A3L6RVP0_PANMI; Uncharacterized protein
STRING	Pavir.J22770.1.p	4e-96	(Panicum virgatum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP3653	34	79

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G55580.1	5e-39	GRAS family protein

Link Out ? help Back to Top
Phytozome	Pavir.1NG093700.1.p

Publications ? help Back to Top
Li X, et al. Control of tillering in rice. Nature, 2003. 422(6932): p. 618-21 [PMID:12687001] Sun F, et al. Identification and functional analysis of the MOC1 interacting protein 1. J Genet Genomics, 2010. 37(1): p. 69-77 [PMID:20171579] Sanyal A, et al. Orthologous comparisons of the Hd1 region across genera reveal Hd1 gene lability within diploid Oryza species and disruptions to microsynteny in Sorghum. Mol. Biol. Evol., 2010. 27(11): p. 2487-506 [PMID:20522726] Yan WH, et al. A major QTL, Ghd8, plays pleiotropic roles in regulating grain productivity, plant height, and heading date in rice. Mol Plant, 2011. 4(2): p. 319-30 [PMID:21148627] Xu C, et al. Degradation of MONOCULM 1 by APC/C(TAD1) regulates rice tillering. Nat Commun, 2012. 3: p. 750 [PMID:22434193] Lin Q, et al. Rice APC/C(TE) controls tillering by mediating the degradation of MONOCULM 1. Nat Commun, 2012. 3: p. 752 [PMID:22434195] Liang WH,Shang F,Lin QT,Lou C,Zhang J Tillering and panicle branching genes in rice. Gene, 2014. 537(1): p. 1-5 [PMID:24345551] Zhang B, et al. Novel function of a putative MOC1 ortholog associated with spikelet number per spike in common wheat. Sci Rep, 2015. 5: p. 12211 [PMID:26197925]