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

Gorai.004G220000.1

Common Name

B456_004G220000, LOC105792298

Organism

Gossypium raimondii

Taxonomic ID

29730

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Malvoideae; Gossypium

Family

LBD

Protein Properties

Length: 217aa MW: 23382 Da PI: 5.79

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gorai.004G220000.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	124.6	5e-39	7	107	1	100
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleql 90 +C aCk+lrr+C+k+Cv+apyf +eq + +fa++hk+FGasnv+kll++lp +er +a+ ++ yeAear++dP+yG+v++i++lqqq+ +l Gorai.004G220000.1 7 PCGACKFLRRRCVKGCVFAPYFSHEQgATHFAAIHKVFGASNVSKLLTHLPVNERCEAAVTISYEAEARLQDPIYGCVSHIFALQQQVVNL 97 7***********************89*********************************************************** PP DUF260 91 kaelallkee 100 +a+la lke+ Gorai.004G220000.1 98 QAQLACLKEQ 107 ***99987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	22.347	6	108	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	1.6E-37	7	105	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 217 aa Download sequence Send to blast
MTGAGSPCGA CKFLRRRCVK GCVFAPYFSH EQGATHFAAI HKVFGASNVS KLLTHLPVNE 60 RCEAAVTISY EAEARLQDPI YGCVSHIFAL QQQVVNLQAQ LACLKEQAAS STFINGTSGS 120 GNPNNVLLQS WFHNNSTMAT PNLNPNLSEN GFLDPNSLVN YESSSVISSS SGEDRSSFNA 180 FGEAVPCSMA SFEEQWSNFQ DVDDLQSMAF GFVHHS*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	1e-37	3	101	7	104	LOB family transfactor Ramosa2.1
5ly0_B	1e-37	3	101	7	104	LOB family transfactor Ramosa2.1
Search in ModeBase

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in roots. {ECO:0000269\|PubMed:12068116}.

Functional Description ? help Back to Top
Source	Description
UniProt	Involved in lateral root formation. Regulated by the transcriptional activators ARF7 and ARF19. {ECO:0000269\|PubMed:17259263}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By auxin. {ECO:0000269\|PubMed:15659631, ECO:0000269\|PubMed:17259263}.

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

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_012476262.1	1e-160	PREDICTED: LOB domain-containing protein 29-like
Swissprot	Q9M2J7	2e-66	LBD29_ARATH; LOB domain-containing protein 29
TrEMBL	A0A0D2R230	1e-159	A0A0D2R230_GOSRA; Uncharacterized protein
STRING	Gorai.004G220000.1	1e-160	(Gossypium raimondii)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM108	28	359

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G58190.1	5e-57	lateral organ boundaries-domain 29

Link Out ? help Back to Top
Phytozome	Gorai.004G220000.1
Entrez Gene	105792298

Publications ? help Back to Top
Paterson AH, et al. Repeated polyploidization of Gossypium genomes and the evolution of spinnable cotton fibres. Nature, 2012. 492(7429): p. 423-7 [PMID:23257886] Gupta A,Singh M,Laxmi A Interaction between glucose and brassinosteroid during the regulation of lateral root development in Arabidopsis. Plant Physiol., 2015. 168(1): p. 307-20 [PMID:25810094] Porco S, et al. Lateral root emergence in Arabidopsis is dependent on transcription factor LBD29 regulation of auxin influx carrier LAX3. Development, 2016. 143(18): p. 3340-9 [PMID:27578783] Lee K,Seo PJ High-temperature promotion of callus formation requires the BIN2-ARF-LBD axis in Arabidopsis. Planta, 2017. 246(4): p. 797-802 [PMID:28766014] Xu C,Cao H,Xu E,Zhang S,Hu Y Genome-Wide Identification of Arabidopsis LBD29 Target Genes Reveals the Molecular Events behind Auxin-Induced Cell Reprogramming during Callus Formation. Plant Cell Physiol., 2018. 59(4): p. 744-755 [PMID:29121271] Xu C, et al. Control of auxin-induced callus formation by bZIP59-LBD complex in Arabidopsis regeneration. Nat Plants, 2018. 4(2): p. 108-115 [PMID:29358751]