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

Thecc1EG009888t1

Common Name

TCM_009888

Organism

Theobroma cacao

Taxonomic ID

3641

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Byttnerioideae; Theobroma

Family

LBD

Protein Properties

Length: 237aa MW: 26115.9 Da PI: 8.6736

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Thecc1EG009888t1	genome	CGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	99.4	3.4e-31	4	107	1	99
DUF260 1 aCaaCkvlrrkCakdCvlapyf.....paeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqle 88 +C++C+vlr++C+++C+++p++ p++q++++ +++k++G++ +l+l++a p++ r+++++sl+yeA+ r+ +PvyG+vg+++++++ + Thecc1EG009888t1 4 SCNGCRVLRKGCSENCIIRPCLqwiksPDSQANATLFLAKFYGRAGLLNLIEAGPQHLRPAIFRSLLYEACGRVVNPVYGSVGMLWSGNWAQC 96 6****************************************************************************************** PP DUF260 89 qlkaelallke 99 q++++++l ++ Thecc1EG009888t1 97 QAAVDAVLKGS 107 *99988766 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	16.832	3	109	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	9.5E-25	4	102	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 237 aa Download sequence Send to blast
MKMSCNGCRV LRKGCSENCI IRPCLQWIKS PDSQANATLF LAKFYGRAGL LNLIEAGPQH 60 LRPAIFRSLL YEACGRVVNP VYGSVGMLWS GNWAQCQAAV DAVLKGSPIT HTSSSDSLAL 120 QPISPLKTYD IRHVSKEPRP ADIDKLKTRT RFKRSVNRSK RQVDSPSYDS WMSQLGNDDS 180 KDDESMFSVE SVEGSLVNQM KKVPALKFTS QIEESTDDVG LELTLGLVPT ALQPHQ*

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	JX585561	9e-52	JX585561.1 Gossypium hirsutum clone NBRI_GE19169 microsatellite sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_007044347.1	1e-177	PREDICTED: LOB domain-containing protein 42
Swissprot	Q9CA30	4e-87	LBD42_ARATH; LOB domain-containing protein 42
TrEMBL	A0A061ED63	1e-176	A0A061ED63_THECC; LOB domain-containing protein 42
STRING	EOY00179	1e-176	(Theobroma cacao)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM8463	26	39

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G68510.1	2e-89	LOB domain-containing protein 42

Link Out ? help Back to Top
Phytozome	Thecc1EG009888t1
Entrez Gene	18609259

Publications ? help Back to Top
Motamayor JC, et al. The genome sequence of the most widely cultivated cacao type and its use to identify candidate genes regulating pod color. Genome Biol., 2013. 14(6): p. r53 [PMID:23731509]