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.010G170700.1

Common Name

B456_010G170700, LOC105774801

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: 171aa MW: 18549.2 Da PI: 8.1295

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gorai.010G170700.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	148.4	1.9e-46	13	112	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.010G170700.1 13 PCAACKLLRRRCAQDCVFAPYFPADEPQKFANVHKVFGASNVNKMLQELPVHQRGDAVSSIVYEANARVRDPVYGCVGAISSLQQQIDALQ 103 7**************************************************************************************** PP DUF260 92 aelallkee 100 ++lal+++e Gorai.010G170700.1 104 TQLALTQAE 112 **99976 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	26.615	12	113	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	1.1E-45	13	110	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 171 aa Download sequence Send to blast
MKESGRKQGA ASPCAACKLL RRRCAQDCVF APYFPADEPQ KFANVHKVFG ASNVNKMLQE 60 LPVHQRGDAV SSIVYEANAR VRDPVYGCVG AISSLQQQID ALQTQLALTQ AEVVHLRVRQ 120 TASFPHGFCP TSPSNSGSPT FKLMGSQTMP TFDLDMVVDQ ASLGEPMWSF *

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	1e-50	9	125	7	123	LOB family transfactor Ramosa2.1
5ly0_B	1e-50	9	125	7	123	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-61	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_012452830.1	1e-125	PREDICTED: LOB domain-containing protein 4 isoform X1
Swissprot	Q9SHE9	2e-82	LBD4_ARATH; LOB domain-containing protein 4
TrEMBL	A0A0D2UE35	1e-124	A0A0D2UE35_GOSRA; Uncharacterized protein
STRING	Gorai.010G170700.1	1e-125	(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	8e-85	LOB domain-containing protein 4

Link Out ? help Back to Top
Phytozome	Gorai.010G170700.1
Entrez Gene	105774801

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]