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.011G051200.1

Common Name

B456_011G051200, LOC105776860

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: 172aa MW: 18553 Da PI: 8.1502

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gorai.011G051200.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	146.5	7.2e-46	14	113	1	100
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlk 91 +CaaCk+lrr+Ca+dCv+apyfpa++p+kfanvhk+FGasnv k+l++lp ++r da+ss+vyeA+ar+rdPvyG+vg i++lqqq+++l+ Gorai.011G051200.1 14 PCAACKLLRRRCAHDCVFAPYFPADEPHKFANVHKVFGASNVNKMLQELPVHQRGDAVSSMVYEANARVRDPVYGCVGAISSLQQQIDTLQ 104 7**************************************************************************************** PP DUF260 92 aelallkee 100 ++lal+++e Gorai.011G051200.1 105 TQLALAQAE 113 **99976 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	26.587	13	114	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	1.9E-45	14	111	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 172 aa Download sequence Send to blast
MKESGGRKQG AASPCAACKL LRRRCAHDCV FAPYFPADEP HKFANVHKVF GASNVNKMLQ 60 ELPVHQRGDA VSSMVYEANA RVRDPVYGCV GAISSLQQQI DTLQTQLALA QAEVVHLRVR 120 QTASYSHHGF APTSPTNSGS PSSNHGSQVK PIFDMDVVMD QASLGEPMWS C*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	4e-50	10	115	7	112	LOB family transfactor Ramosa2.1
5ly0_B	4e-50	10	115	7	112	LOB family transfactor Ramosa2.1
Search in ModeBase

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in young shoots, roots, stems, leaves and flowers. {ECO:0000269\|PubMed:12068116}.

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	GQ394806	2e-86	GQ394806.1 Gossypium hirsutum cultivar Delta Opal clone MONCS1829 SSR marker DPL0016 genomic sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_012455253.1	1e-127	PREDICTED: LOB domain-containing protein 4-like
Swissprot	Q9SHE9	4e-79	LBD4_ARATH; LOB domain-containing protein 4
TrEMBL	A0A0D2UNR8	1e-125	A0A0D2UNR8_GOSRA; Uncharacterized protein
TrEMBL	A0A2P5Q7G3	1e-125	A0A2P5Q7G3_GOSBA; Uncharacterized protein
STRING	Gorai.011G051200.1	1e-126	(Gossypium raimondii)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM131	28	340

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G31320.1	4e-71	LOB domain-containing protein 4

Link Out ? help Back to Top
Phytozome	Gorai.011G051200.1
Entrez Gene	105776860

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]