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

GSBRNA2T00116705001

Common Name

GSBRNA2T00116705001, LOC106454618

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: 189aa MW: 20738.6 Da PI: 6.7714

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00116705001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	123.8	9e-39	15	115	1	100
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleq 89 +C aCk+lrrkC+++Cv+apyf aeq +++fa+vhk+FGasn +k+l +lp ++r++a+s+l+yeA ar+rdPvyG+vg++l+lq+q+++ GSBRNA2T00116705001 15 PCGACKFLRRKCVSGCVFAPYFDAEQgTATFAAVHKVFGASNASKMLLRLPLNKRHEAVSTLCYEALARLRDPVYGSVGHLLSLQHQVMN 104 7*********************9988********************************************************** PP DUF260 90 lkaelallkee 100 l+ae+a+++++ GSBRNA2T00116705001 105 LQAEIAHVQAR 115 ****99976 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	23.206	14	116	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	5.6E-38	15	113	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 189 aa Download sequence Send to blast
MTGNLNGGGR GGEGPCGACK FLRRKCVSGC VFAPYFDAEQ GTATFAAVHK VFGASNASKM 60 LLRLPLNKRH EAVSTLCYEA LARLRDPVYG SVGHLLSLQH QVMNLQAEIA HVQARLSAFQ 120 RVSIIPPQQM QQPPHNNEYP VEQTNLDFVW EEEQLPQAGN EDGEFQELAM QFVSKYLTEV 180 KLPACTFG*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	1e-34	11	113	7	110	LOB family transfactor Ramosa2.1
5ly0_B	1e-34	11	113	7	110	LOB family transfactor Ramosa2.1
Search in ModeBase

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

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00116705001

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	AC189498	1e-170	AC189498.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB086L12, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009143138.1	1e-139	PREDICTED: LOB domain-containing protein 19-like
Refseq	XP_013752185.1	1e-139	LOB domain-containing protein 19
Swissprot	O22132	6e-92	LBD19_ARATH; LOB domain-containing protein 19
TrEMBL	A0A291LR70	1e-138	A0A291LR70_BRARR; Transcription factor LBD19
TrEMBL	A0A397ZDV0	1e-138	A0A397ZDV0_BRACM; Uncharacterized protein
TrEMBL	M4CL22	1e-138	M4CL22_BRARP; Uncharacterized protein
STRING	Bra004908.1-P	1e-139	(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
AT2G45410.1	6e-90	LOB domain-containing protein 19

Link Out ? help Back to Top
Entrez Gene	106454618

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]