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.J106000.1.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

LBD

Protein Properties

Length: 210aa MW: 21230.2 Da PI: 7.9869

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Pavir.J106000.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	93	3.3e-29	2	103	1	97
DUF260 1 aCaaCkvlrrkCakdCvlapyf.....paeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqql 87 +C++C+vlr++C+++Cvl+p++ +++q +++ +v+k+FG++ +l++++a+p+ +r+++++sl+yeA r+ +Pv+Gavg++ +++++l Pavir.J106000.1.p 2 SCNGCRVLRKGCSEGCVLRPCLrwidaADAQGHATVFVAKFFGRAGLLSFISAVPDAQRPALFQSLLYEAAGRTINPVHGAVGLLGTGNWHL 93 6*******************9998666778******************************************************** PP DUF260 88 eqlkaelall 97 +q++++++l+ Pavir.J106000.1.p 94 CQAAVDTVLR 103 *9998776 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	18.768	1	107	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	7.0E-25	2	100	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 210 aa Download sequence Send to blast
MSCNGCRVLR KGCSEGCVLR PCLRWIDAAD AQGHATVFVA KFFGRAGLLS FISAVPDAQR 60 PALFQSLLYE AAGRTINPVH GAVGLLGTGN WHLCQAAVDT VLRGGAIAPL PELGGGRGDG 120 AGSGDLYGPA AGGWSTFSTA KLVRKAAGEA AAGASCDLGL CLSPGSPRAP GEPRAPLLRP 180 GTPSMSSDES VTTTTTGGDR EPVLLNLFP*

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Pvr.2618	1e-142	callus\| root\| stem

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in young shoots, roots, stems, leaves and flowers. {ECO:0000269\|PubMed:12068116}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Pavir.J106000.1.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	FP097640	1e-148	FP097640.1 Phyllostachys edulis cDNA clone: bphyem213i10, full insert sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_004983938.1	1e-129	LOB domain-containing protein 37
Swissprot	Q9FN11	3e-67	LBD37_ARATH; LOB domain-containing protein 37
TrEMBL	A0A368SP59	1e-128	A0A368SP59_SETIT; Uncharacterized protein
STRING	Pavir.J18418.1.p	1e-147	(Panicum virgatum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP4084	36	75

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G67420.1	1e-68	LOB domain-containing protein 37

Link Out ? help Back to Top
Phytozome	Pavir.J106000.1.p

Publications ? help Back to Top
Menz J,Li Z,Schulze WX,Ludewig U Early nitrogen-deprivation responses in Arabidopsis roots reveal distinct differences on transcriptome and (phospho-) proteome levels between nitrate and ammonium nutrition. Plant J., 2016. 88(5): p. 717-734 [PMID:27419465]