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

Manes.13G031900.1.p

Organism

Manihot esculenta

Taxonomic ID

3983

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Euphorbiaceae; Crotonoideae; Manihoteae; Manihot

Family

LBD

Protein Properties

Length: 231aa MW: 25203.1 Da PI: 6.6081

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Manes.13G031900.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	125.7	2.2e-39	7	107	1	100
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleq 89 +C aCk+lrrkC+++Cv+apyf++eq + +fa++hk+FGasnv+kll++lp ++r +a+ ++ yeA+ar++dP+yG+v++i++lqqq+++ Manes.13G031900.1.p 7 PCGACKFLRRKCVRGCVFAPYFCHEQgATHFAAIHKVFGASNVSKLLAHLPVSDRCEAAVTISYEAQARLQDPIYGCVSHIFALQQQVMN 96 7***********************89********************************************************** PP DUF260 90 lkaelallkee 100 l+a+la+++e+ Manes.13G031900.1.p 97 LQAQLASIREQ 107 ****99987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	22.243	6	108	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	1.3E-37	7	105	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 231 aa Download sequence Send to blast
MTGSGSPCGA CKFLRRKCVR GCVFAPYFCH EQGATHFAAI HKVFGASNVS KLLAHLPVSD 60 RCEAAVTISY EAQARLQDPI YGCVSHIFAL QQQVMNLQAQ LASIREQAAQ SLINGSATAN 120 PNEKYYGKPA CLLPEDLQSS WFQSGNSNMV PQFNPSPITG NTQYGENGFV DIPYAMGNYG 180 KSSTNTSFDS FEEAASHSIS SLDMQKDNRQ WTYQDSDDLR SVAFGYIQHS *

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	2e-35	3	101	7	104	LOB family transfactor Ramosa2.1
5ly0_B	2e-35	3	101	7	104	LOB family transfactor Ramosa2.1
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Acts as positive regulator of adventitious (crown) root formation by promoting its initiation (PubMed:15829602, PubMed:15960615). Acts as positive regulator of lateral root formation. Regulated by the auxin response factor and transcriptional activator ARF23/ARF1 (PubMed:15829602). Involved in auxin-mediated cell dedifferentiation, and may promote the initial cell division in the pericycle cells adjacent to the peripheral vascular cylinder at the base of the stem (PubMed:15960615). May act upstream of the gene regulatory network controlling adventitious root (crown) development (PubMed:21806801). {ECO:0000269\|PubMed:15829602, ECO:0000269\|PubMed:15960615, ECO:0000269\|PubMed:21806801}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Manes.13G031900.1.p

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Induced by auxin (PubMed:15829602, PubMed:15960615). Induced by ethylene (PubMed:15960615). {ECO:0000269\|PubMed:15829602, ECO:0000269\|PubMed:15960615}.

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	BT137601	6e-87	BT137601.1 Lotus japonicus clone JCVI-FLLj-14A20 unknown mRNA.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_021633768.1	1e-174	LOB domain-containing protein 29-like
Swissprot	Q5UG13	6e-71	LBD_ORYSJ; LOB domain-containing protein CRL1
TrEMBL	A0A2C9UQF8	1e-173	A0A2C9UQF8_MANES; Uncharacterized protein
STRING	cassava4.1_026776m	1e-174	(Manihot esculenta)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF3571	33	66

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G58190.1	2e-72	lateral organ boundaries-domain 29

Link Out ? help Back to Top
Phytozome	Manes.13G031900.1.p

Publications ? help Back to Top
Coudert Y,Périn C,Courtois B,Khong NG,Gantet P Genetic control of root development in rice, the model cereal. Trends Plant Sci., 2010. 15(4): p. 219-26 [PMID:20153971] Kitomi Y, et al. The auxin responsive AP2/ERF transcription factor CROWN ROOTLESS5 is involved in crown root initiation in rice through the induction of OsRR1, a type-A response regulator of cytokinin signaling. Plant J., 2011. 67(3): p. 472-84 [PMID:21481033] Coudert Y, et al. Transcript profiling of crown rootless1 mutant stem base reveals new elements associated with crown root development in rice. BMC Genomics, 2011. 12: p. 387 [PMID:21806801]