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.013G002900.1

Common Name

B456_013G002900, LOC105782208

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: 210aa MW: 22514.7 Da PI: 4.8951

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gorai.013G002900.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	135.6	1.9e-42	43	142	1	100
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlk 91 +CaaCk+lrr+Ca++Cvlapyfp ++p+kfa++h++FGasn++k+l++lpe +r+da+ss+vyeA ar+rdPvyG++g +++lq+q+++l+ Gorai.013G002900.1 43 PCAACKILRRRCADKCVLAPYFPPTEPAKFAIAHRVFGASNIIKFLQELPECQRSDAVSSMVYEAGARIRDPVYGCAGAVFQLQKQVNELQ 133 7**************************************************************************************** PP DUF260 92 aelallkee 100 a+la+++++ Gorai.013G002900.1 134 AQLAKAQAQ 142 ***9987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	25.832	42	143	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	3.9E-42	43	140	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 210 aa Download sequence Send to blast
MEYSEPIPTP TVSSSPSLSP NSSISSNSPP SPPLSPPLVV ISPCAACKIL RRRCADKCVL 60 APYFPPTEPA KFAIAHRVFG ASNIIKFLQE LPECQRSDAV SSMVYEAGAR IRDPVYGCAG 120 AVFQLQKQVN ELQAQLAKAQ AQVVNMQLQQ ANVLALLCMD MDKAPSSPPP NSPQSAVGDT 180 FITNSSYLSF MEDINNDANS GSLWEPLWT*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	4e-41	42	145	10	113	LOB family transfactor Ramosa2.1
5ly0_B	4e-41	42	145	10	113	LOB family transfactor Ramosa2.1
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Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in young shoots, roots, stems, leaves and flowers. {ECO:0000269\|PubMed:12068116}.
Uniprot	TISSUE SPECIFICITY: Expressed in young shoots, 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	JX616907	2e-49	JX616907.1 Gossypium hirsutum clone NBRI_GE61864 microsatellite sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_012462233.1	1e-151	PREDICTED: LOB domain-containing protein 1-like
Swissprot	Q9LQR0	1e-76	LBD1_ARATH; LOB domain-containing protein 1
Swissprot	Q9SK08	5e-76	LBD11_ARATH; LOB domain-containing protein 11
TrEMBL	A0A0D2W196	1e-150	A0A0D2W196_GOSRA; Uncharacterized protein
STRING	Gorai.013G002900.1	1e-151	(Gossypium raimondii)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM1141	28	105

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G07900.1	2e-66	LOB domain-containing protein 1

Link Out ? help Back to Top
Phytozome	Gorai.013G002900.1
Entrez Gene	105782208

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]