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.012G015900.1

Common Name

B456_012G015900, LOC105778739

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: 217aa MW: 23578.9 Da PI: 8.7887

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gorai.012G015900.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	133.1	1.1e-41	44	143	1	100
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlk 91 +CaaCk+lrr+Ca++C+++pyf ++p+kfa vhk+FGasnv+k+l ++pe++r da++slvyeA++r+rdPvyG++g i++lq+q+++l+ Gorai.012G015900.1 44 PCAACKLLRRRCAQECPFSPYFSPHEPQKFASVHKVFGASNVSKMLMEVPESQRADAANSLVYEANVRLRDPVYGCMGAISALQHQVQSLQ 134 7**************************************************************************************** PP DUF260 92 aelallkee 100 ae++++++e Gorai.012G015900.1 135 AEVHAVRAE 143 **99987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	25.624	43	144	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	5.3E-42	44	141	IPR004883	Lateral organ boundaries, LOB

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0005634	Cellular Component	nucleus

Sequence ? help Back to Top
Protein Sequence Length: 217 aa Download sequence Send to blast
MSGERERFDE IGKKIKREGG VSCHQQMGRR HILSPPGTLN TITPCAACKL LRRRCAQECP 60 FSPYFSPHEP QKFASVHKVF GASNVSKMLM EVPESQRADA ANSLVYEANV RLRDPVYGCM 120 GAISALQHQV QSLQAEVHAV RAELLKYKYR EANFIPSSLV ALLSSGAVSV AAPPPPPQPP 180 PPPLPTTSTS TSSMYTQLTT AADYTTISNE NVSYFG*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	5e-47	36	159	3	126	LOB family transfactor Ramosa2.1
5ly0_B	5e-47	36	159	3	126	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}.

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	HQ525765	1e-146	HQ525765.1 Gossypium herbaceum clone NBRI_D_2250-1 simple sequence repeat marker, mRNA sequence.
GenBank	HQ527996	1e-146	HQ527996.1 Gossypium herbaceum clone NBRI_D_2250-2 simple sequence repeat marker, mRNA sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_012457948.1	1e-160	PREDICTED: LOB domain-containing protein 15-like
Swissprot	Q8L5T5	2e-83	LBD15_ARATH; LOB domain-containing protein 15
TrEMBL	A0A0D2RW35	1e-159	A0A0D2RW35_GOSRA; Uncharacterized protein
STRING	Gorai.012G015900.1	1e-159	(Gossypium raimondii)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM1927	27	81

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G40470.1	1e-84	LOB domain-containing protein 15

Link Out ? help Back to Top
Phytozome	Gorai.012G015900.1
Entrez Gene	105778739

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] Ohashi-Ito K,Iwamoto K,Fukuda H LOB DOMAIN-CONTAINING PROTEIN 15 Positively Regulates Expression of VND7, a Master Regulator of Tracheary Elements. Plant Cell Physiol., 2018. 59(5): p. 989-996 [PMID:29444288]