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

AMDW01065961.1_FGP001

Organism

Oryza longistaminata

Taxonomic ID

4528

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza

Family

LBD

Protein Properties

Length: 94aa MW: 10242.8 Da PI: 8.4954

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
AMDW01065961.1_FGP001	genome	BGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	130.1	9.8e-41	9	94	1	86
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqq 86 +Ca+Ck+lrr+C+++Cv+apyfpae++++fa+vh++FGasnv+k+l ++p+ +r+da+sslvyeA+ar+rdPvyG+v+ i+ lqqq AMDW01065961.1_FGP001 9 PCASCKLLRRRCTSECVFAPYFPAEEAQRFAMVHRVFGASNVSKMLLDVPPPQRPDAVSSLVYEANARMRDPVYGCVAAISFLQQQ 94 7***********************************************************************************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	24.878	8	94	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	5.4E-40	9	94	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 94 aa Download sequence Send to blast
MAGSGSGTPC ASCKLLRRRC TSECVFAPYF PAEEAQRFAM VHRVFGASNV SKMLLDVPPP 60 QRPDAVSSLV YEANARMRDP VYGCVAAISF LQQQ

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	1e-42	5	94	7	96	LOB family transfactor Ramosa2.1
5ly0_B	1e-42	5	94	7	96	LOB family transfactor Ramosa2.1
Search in ModeBase

Cis-element ? help Back to Top
Source	Link
PlantRegMap	AMDW01065961.1_FGP001

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	AK109211	1e-141	AK109211.1 Oryza sativa Japonica Group cDNA clone:002-156-D02, full insert sequence.
GenBank	AK241761	1e-141	AK241761.1 Oryza sativa Japonica Group cDNA, clone: J065205C18, full insert sequence.
GenBank	AP014967	1e-141	AP014967.1 Oryza sativa Japonica Group DNA, chromosome 11, cultivar: Nipponbare, complete sequence.
GenBank	AP014968	1e-141	AP014968.1 Oryza sativa Japonica Group DNA, chromosome 12, cultivar: Nipponbare, complete sequence.
GenBank	BX000494	1e-141	BX000494.2 Oryza sativa chromosome 12, . BAC OSJNBa0052H10 of library OSJNBa from chromosome 12 of cultivar Nipponbare of ssp. japonica of Oryza sativa (rice), complete sequence.
GenBank	BX000497	1e-141	BX000497.1 Oryza sativa chromosome 11, . BAC OSJNBa0010K05 of library OSJNBa from chromosome 11 of cultivar Nipponbare of ssp. japonica of Oryza sativa (rice), complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015618081.1	1e-64	LOB domain-containing protein 12
Refseq	XP_015618082.1	1e-64	LOB domain-containing protein 12
Refseq	XP_015618083.1	1e-64	LOB domain-containing protein 12
Refseq	XP_025877106.1	1e-64	LOB domain-containing protein 12
Refseq	XP_025877964.1	1e-64	LOB domain-containing protein 12
Swissprot	Q9SHE9	5e-45	LBD4_ARATH; LOB domain-containing protein 4
TrEMBL	I1R3A9	5e-64	I1R3A9_ORYGL; Uncharacterized protein
STRING	ORGLA12G0001500.1	8e-65	(Oryza glaberrima)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP882	38	150

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G31320.1	2e-47	LOB domain-containing protein 4