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

orange1.1g028221m

Common Name

CISIN_1g028221mg

Organism

Citrus sinensis

Taxonomic ID

2711

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Sapindales; Rutaceae; Aurantioideae; Citrus

Family

LBD

Protein Properties

Length: 213aa MW: 22497.5 Da PI: 8.5905

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
orange1.1g028221m	genome	ICGC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	131.9	2.7e-41	21	120	1	100
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlka 92 +CaaCk+lrr+Ca++C+++pyf ++p+kfa+vhk+FGasnv+kll+++p+++r da++slv+eA+ r+rdPvyG++g i++lqqq+++l+a orange1.1g028221m 21 PCAACKLLRRRCAEECPFSPYFSPHEPQKFAAVHKVFGASNVSKLLSEVPDSQRADAANSLVFEANLRLRDPVYGCLGAISSLQQQVQSLQA 112 7***************************************************************************************** PP DUF260 93 elallkee 100 el+++++e orange1.1g028221m 113 ELNAMRTE 120 *99876 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	25.482	20	121	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	2.1E-41	21	118	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 213 aa Download sequence Send to blast
MGRRQMLNPN SSAGTLNTVT PCAACKLLRR RCAEECPFSP YFSPHEPQKF AAVHKVFGAS 60 NVSKLLSEVP DSQRADAANS LVFEANLRLR DPVYGCLGAI SSLQQQVQSL QAELNAMRTE 120 IMKYKYREAA TASTIISSSN PLFSSGVVSI AGGSSAPSLS TSQPPPHPPP PPPPSIVISS 180 SSSSSVSSLY TPPMRTTGCS SISSDSIVPY FD*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	4e-46	21	124	11	114	LOB family transfactor Ramosa2.1
5ly0_B	4e-46	21	124	11	114	LOB family transfactor Ramosa2.1
Search in ModeBase

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in shoots and roots and at low levels in flowers, but not in leaves or inflorescence stems. {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	HG975445	3e-51	HG975445.1 Solanum pennellii chromosome ch06, complete genome.
GenBank	HG975518	3e-51	HG975518.1 Solanum lycopersicum chromosome ch06, complete genome.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015382435.1	1e-150	LOB domain-containing protein 15 isoform X1
Refseq	XP_024040363.1	1e-150	LOB domain-containing protein 15 isoform X1
Swissprot	Q9AT61	3e-69	LBD13_ARATH; LOB domain-containing protein 13
TrEMBL	A0A067E3J4	1e-150	A0A067E3J4_CITSI; Uncharacterized protein
STRING	XP_006468163.1	1e-139	(Citrus sinensis)
STRING	XP_006431987.1	1e-139	(Citrus clementina)

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	4e-63	LOB domain-containing protein 15

Link Out ? help Back to Top
Phytozome	orange1.1g028221m

Publications ? help Back to Top
Cho C,Jeon E,Pandey SK,Ha SH,Kim J LBD13 positively regulates lateral root formation in Arabidopsis. Planta, 2019. 249(4): p. 1251-1258 [PMID:30627888]