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

LOC_Os02g48270.1

Organism

Oryza sativa subsp. japonica

Taxonomic ID

39947

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: 126aa MW: 13870.9 Da PI: 7.8534

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
LOC_Os02g48270.1	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	51.5	2.9e-16	7	62	45	100
DUF260 45 llkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlkaelallkee 100 l++l ++ da+sslvyeA+ r+rdPvyG+vg i+ +q+q++ql+ +la+++ e LOC_Os02g48270.1 7 SLQELLARQQGDAVSSLVYEANDRMRDPVYGCVGAISFMQNQVSQLQMQLAVAQGE 62 688999999******************************************99876 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	9.75	1	63	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	3.6E-14	7	60	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 126 aa Download sequence Send to blast
MLARCSSLQE LLARQQGDAV SSLVYEANDR MRDPVYGCVG AISFMQNQVS QLQMQLAVAQ 60 GEILCIQMQH RDGNENKKNL RDLGCTFFAS CGPSRSVAGQ AERFGGLQFI MGRNHFWASI 120 WPIGI*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	6e-16	8	64	56	112	LOB family transfactor Ramosa2.1
5ly0_B	6e-16	8	64	56	112	LOB family transfactor Ramosa2.1
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Expression -- Microarray ? help Back to Top
Source	ID	E-value
GEO	115463328	2e-70

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed predominantly in roots, and at low levels in shoots, floral stems and open flowers. {ECO:0000269\|PubMed:12068116}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	LOC_Os02g48270.1

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

Phenotype -- Mutation ? help Back to Top
Source	ID
RiceGE	Os02g48270

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AP004165	1e-116	AP004165.3 Oryza sativa Japonica Group genomic DNA, chromosome 2, BAC clone:OJ1479_B12.
GenBank	AP014958	1e-116	AP014958.1 Oryza sativa Japonica Group DNA, chromosome 2, cultivar: Nipponbare, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015624534.1	5e-46	LOB domain-containing protein 12
Swissprot	Q8LBW3	5e-28	LBD12_ARATH; LOB domain-containing protein 12
TrEMBL	I1P3J6	2e-83	I1P3J6_ORYGL; Uncharacterized protein
STRING	ORGLA02G0255200.1	4e-84	(Oryza glaberrima)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP882	38	150
Representative plant	OGRP60	16	318

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G30130.1	2e-30	LBD family protein

Link Out ? help Back to Top
Phytozome	LOC_Os02g48270.1

Publications ? help Back to Top
Penfield S, et al. Reserve mobilization in the Arabidopsis endosperm fuels hypocotyl elongation in the dark, is independent of abscisic acid, and requires PHOSPHOENOLPYRUVATE CARBOXYKINASE1. Plant Cell, 2004. 16(10): p. 2705-18 [PMID:15367715]