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

BGIOSGA011118-PA

Common Name

OsI_10739

Organism

Oryza sativa subsp. indica

Taxonomic ID

39946

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

LBD

Protein Properties

Length: 276aa MW: 28309.8 Da PI: 8.1882

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
BGIOSGA011118-PA	genome	RIS	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	130.2	8.9e-41	38	138	1	100
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlka 92 +C aCk+lrrkC+++C++apyf +eq +++fa+vhk+FGasnv+kll ++p ++r+da+ +++yeA+ar+rdPvyG+v++i++lqqq+ +l+a BGIOSGA011118-PA 38 PCGACKFLRRKCVSGCIFAPYFDSEQgAAHFAAVHKVFGASNVSKLLLQIPAHKRPDAVVTICYEAQARLRDPVYGCVAHIFALQQQVVNLQA 130 7*********************9989************************************************************* PP DUF260 93 elallkee 100 el +l+++ BGIOSGA011118-PA 131 ELTYLQAH 138 *99876 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PIRSF	PIRSF038127	2.8E-133	1	276	IPR017394	LOB domain-containing protein 18/20
PROSITE profile	PS50891	23.348	37	139	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	5.2E-40	38	136	IPR004883	Lateral organ boundaries, LOB

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0010089	Biological Process	xylem development
GO:0010199	Biological Process	organ boundary specification between lateral organs and the meristem
GO:0010311	Biological Process	lateral root formation
GO:0005634	Cellular Component	nucleus

Sequence ? help Back to Top
Protein Sequence Length: 276 aa Download sequence Send to blast
MSSGGGASSA LGGGGGGGGG SGGGGGGPSG GGGGGGGPCG ACKFLRRKCV SGCIFAPYFD 60 SEQGAAHFAA VHKVFGASNV SKLLLQIPAH KRPDAVVTIC YEAQARLRDP VYGCVAHIFA 120 LQQQVVNLQA ELTYLQAHLA TLELPSPPPL MPAPPQMPMP APFSISDLPS STSVPTTVDL 180 SALFDPPPQP QWASPLQQQQ HHHHQHHHHQ QQQHQLRQPS YATLARAPSG MTAAAESSGG 240 GGGGGGGDLQ ALARELLDRH RSAVKLEQPP PPHSRS

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	1e-37	34	132	7	104	LOB family transfactor Ramosa2.1
5ly0_B	1e-37	34	132	7	104	LOB family transfactor Ramosa2.1
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Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Os.83177	0.0	panicle

Expression -- Microarray ? help Back to Top
Source	ID	E-value
GEO	115451890	0.0

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in roots, stems, leaves and flowers (PubMed:12068116). Expressed in vascular tissues of hypocotyls, leaves, roots, developing floral organs and siliques (PubMed:19088331). {ECO:0000269\|PubMed:12068116, ECO:0000269\|PubMed:19088331}.

Functional Description ? help Back to Top
Source	Description
UniProt	Involved in the positive regulation of tracheary element (TE) differentiation. Involved in a positive feedback loop that maintains or promotes NAC030/VND7 expression that regulates TE differentiation-related genes. {ECO:0000269\|PubMed:19088331}.

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	AC118672	0.0	AC118672.3 Genomic sequence for Oryza sativa, Nipponbare strain, clone OSJNBb0078P24, from chromosome 3, complete sequence.
GenBank	AP014959	0.0	AP014959.1 Oryza sativa Japonica Group DNA, chromosome 3, cultivar: Nipponbare, complete sequence.
GenBank	CP012611	0.0	CP012611.1 Oryza sativa Indica Group cultivar RP Bio-226 chromosome 3 sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015629413.1	1e-124	LOB domain-containing protein 30
Swissprot	O81323	3e-70	LBD30_ARATH; LOB domain-containing protein 30
TrEMBL	A2XEI2	0.0	A2XEI2_ORYSI; Uncharacterized protein
STRING	OGLUM03G10340.1	1e-124	(Oryza glumipatula)
STRING	OS03T0246900-00	1e-124	(Oryza sativa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP3346	37	82

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G00220.1	7e-68	LBD family protein

Publications ? help Back to Top
Rast-Somssich MI, et al. The Arabidopsis JAGGED LATERAL ORGANS (JLO) gene sensitizes plants to auxin. J. Exp. Bot., 2017. 68(11): p. 2741-2755 [PMID:28472464] Liu C,Yu H,Li L SUMO modification of LBD30 by SIZ1 regulates secondary cell wall formation in Arabidopsis thaliana. PLoS Genet., 2019. 15(1): p. e1007928 [PMID:30657769]