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_Os05g07270.1

Common Name

Os05g0165450

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: 208aa MW: 21567.6 Da PI: 8.8075

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
LOC_Os05g07270.1	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	129.1	2e-40	27	126	1	100
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlkae 93 +CaaCk+lrr+Ca++C+++pyf +p+kfa vhk+FGasnv+k+l +++e++r da++slvyeA+ r+rdPvyG++g il+lqqq++ l+ae LOC_Os05g07270.1 27 PCAACKLLRRRCAQECPFSPYFSPLEPHKFASVHKVFGASNVSKMLLEVHESQRGDAANSLVYEANLRLRDPVYGCMGAILTLQQQVQALEAE 119 7****************************************************************************************** PP DUF260 94 lallkee 100 la++++ LOC_Os05g07270.1 120 LAAVRAD 126 99875 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	25.227	26	127	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	1.8E-40	27	124	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 208 aa Download sequence Send to blast
MARRSCSMPA AGAGPGSAAA AVNTITPCAA CKLLRRRCAQ ECPFSPYFSP LEPHKFASVH 60 KVFGASNVSK MLLEVHESQR GDAANSLVYE ANLRLRDPVY GCMGAILTLQ QQVQALEAEL 120 AAVRADIVRH KYRLPSAAAV LPSSHASHLL AAAAAARQLP VAGTMGVVTT ATLPASASSS 180 STTAVYAAAS SSTDYSSITN ENVPYFS*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	4e-40	27	130	11	114	LOB family transfactor Ramosa2.1
5ly0_B	4e-40	27	130	11	114	LOB family transfactor Ramosa2.1
Search in ModeBase

Expression -- Microarray ? help Back to Top
Source	ID
Expression Atlas	C7J2W5

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in shoots and roots and at low levels in flowers, but not in leaves or inflorescence stems. {ECO:0000269\|PubMed:12068116}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	LOC_Os05g07270.1

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

Phenotype -- Mutation ? help Back to Top
Source	ID
RiceGE	Os05g07270

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AC134341	0.0	AC134341.2 Oryza sativa Japonica Group cultivar Nipponbare chromosome 5 clone OSJNBa0027N19, complete sequence.
GenBank	AP014961	0.0	AP014961.1 Oryza sativa Japonica Group DNA, chromosome 5, cultivar: Nipponbare, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_025881485.1	1e-149	LOB domain-containing protein 15 isoform X1
Swissprot	Q9AT61	1e-66	LBD13_ARATH; LOB domain-containing protein 13
TrEMBL	C7J2W5	1e-147	C7J2W5_ORYSJ; Os05g0165450 protein
STRING	ORUFI05G04770.1	1e-148	(Oryza rufipogon)
STRING	OS05T0165450-00	1e-147	(Oryza sativa)
STRING	ONIVA05G04920.1	1e-148	(Oryza nivara)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP2630	38	91
Representative plant	OGRP60	16	318

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G30340.1	3e-58	LOB domain-containing protein 13

Link Out ? help Back to Top
Phytozome	LOC_Os05g07270.1

Publications ? help Back to Top
Cho C,Jeon E,Pandey SK,Ha SH,Kim J LBD13 positively regulates lateral root formation in Arabidopsis. Planta, 2019. 249(4): p. 1251-1258 [PMID:30627888]