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.009G123600.1

Common Name

B456_009G123600, LOC105771252

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: 152aa MW: 16953.3 Da PI: 8.6032

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gorai.009G123600.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	129.1	1.9e-40	5	104	1	100
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlk 91 +CaaC++lrr+C++dC+l+pyfp+++p++fa vh+++Gasnv+kll++lp++ r +a++sl++eA++r++dPvyG+vg+i+ lqqq+++++ Gorai.009G123600.1 5 RCAACRYLRRRCTQDCILSPYFPSNNPQRFASVHRIYGASNVTKLLQRLPTHLRAEAADSLYFEAQCRLEDPVYGCVGLIFLLQQQIHSAE 95 6**************************************************************************************** PP DUF260 92 aelallkee 100 ++l ++++e Gorai.009G123600.1 96 SQLIKTQAE 104 9999876 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	24.708	4	105	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	3.0E-40	5	102	IPR004883	Lateral organ boundaries, LOB

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0016020	Cellular Component	membrane

Sequence ? help Back to Top
Protein Sequence Length: 152 aa Download sequence Send to blast
MSSGRCAACR YLRRRCTQDC ILSPYFPSNN PQRFASVHRI YGASNVTKLL QRLPTHLRAE 60 AADSLYFEAQ CRLEDPVYGC VGLIFLLQQQ IHSAESQLIK TQAEIAVMKS QTQHPRTQPF 120 PAISGSNNLL LQQSDNDANL SFSNQVSFGF I*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	7e-38	6	105	12	111	LOB family transfactor Ramosa2.1
5ly0_B	7e-38	6	105	12	111	LOB family transfactor Ramosa2.1
Search in ModeBase

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	JX596092	5e-77	JX596092.1 Gossypium hirsutum clone NBRI_GE32583 microsatellite sequence.
GenBank	JX607401	5e-77	JX607401.1 Gossypium hirsutum clone NBRI_GE47812 microsatellite sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_012448120.1	1e-109	PREDICTED: LOB domain-containing protein 24-like
Swissprot	P59468	5e-52	LBD24_ARATH; LOB domain-containing protein 24
TrEMBL	A0A0D2RZL8	1e-107	A0A0D2RZL8_GOSRA; Uncharacterized protein
STRING	Gorai.009G123600.1	1e-108	(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
AT3G26660.1	4e-44	LOB domain-containing protein 24

Link Out ? help Back to Top
Phytozome	Gorai.009G123600.1
Entrez Gene	105771252

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]