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

GSBRNA2T00149083001

Common Name

GSBRNA2T00149083001, LOC106380241

Organism

Brassica napus

Taxonomic ID

3708

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica

Family

LBD

Protein Properties

Length: 220aa MW: 24329.9 Da PI: 6.7859

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00149083001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	122.1	3e-38	7	107	1	100
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleq 89 +C aCk+lrrkCa++Cv+apyf++eq +++fa++hk+FGasn +k+l++lp ++r +a+ ++ yeA+ar++dP+yG+v++i++lqqq+ + GSBRNA2T00149083001 7 PCGACKFLRRKCANGCVFAPYFCHEQgASHFAAIHKVFGASNASKILSNLPISDRCEAAITISYEAQARLHDPIYGCVSHIFALQQQVVN 96 7***********************89********************************************************** PP DUF260 90 lkaelallkee 100 l+a+l+ lk++ GSBRNA2T00149083001 97 LQAQLEILKQQ 107 *****9997 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	22.064	6	108	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	4.1E-36	7	105	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 220 aa Download sequence Send to blast
MSSSGSPCGA CKFLRRKCAN GCVFAPYFCH EQGASHFAAI HKVFGASNAS KILSNLPISD 60 RCEAAITISY EAQARLHDPI YGCVSHIFAL QQQVVNLQAQ LEILKQQAAQ SIMFADSPSS 120 ENPNSYYGDN TKTSYHHDHH QEHRNIHHHH HDETRLVYQT GSSGMVQHGD ATVNSYPTGN 180 CSGFGEVFIY PDLEQHLNSF NQDHLKELQS ANFGYISFS*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	1e-33	4	102	8	105	LOB family transfactor Ramosa2.1
5ly0_B	1e-33	4	102	8	105	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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00149083001

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_013675497.1	1e-163	LOB domain-containing protein 29
Swissprot	Q9M2J7	1e-129	LBD29_ARATH; LOB domain-containing protein 29
TrEMBL	A0A397ZNS0	1e-162	A0A397ZNS0_BRACM; Uncharacterized protein
STRING	Bra014581.1-P	1e-162	(Brassica rapa)

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	1e-113	lateral organ boundaries-domain 29

Link Out ? help Back to Top
Entrez Gene	106380241

Publications ? help Back to Top
Chalhoub B, et al. Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome. Science, 2014. 345(6199): p. 950-3 [PMID:25146293] 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]