PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Seita.6G253100.1.p
Common NameLOC101761009, SETIT_015156mg
Organism
Setaria italica
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Cenchrinae; Setaria
Family LBD
Protein Properties Length: 214aa    MW: 23367.2 Da    PI: 5.5108
Description LBD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Seita.6G253100.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1DUF260120.87.8e-3871071100
              DUF260   1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleql 90 
                         +C aCk+lrrkC+k+Cv+apyf++eq +++fa++hk+FGasn +kll +lp ++r +a+ ++ yeA+ar++dP+yG+v++i++lqqq+ +l
  Seita.6G253100.1.p   7 PCGACKFLRRKCVKGCVFAPYFCHEQgAAHFAAIHKVFGASNASKLLMHLPISDRCEAAVTMSYEAQARLQDPIYGCVAHIFSLQQQVVSL 97 
                         7*************************89*************************************************************** PP

              DUF260  91 kaelallkee 100
                         +ael++ k++
  Seita.6G253100.1.p  98 QAELESFKAQ 107
                         ****998876 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5089121.6486108IPR004883Lateral organ boundaries, LOB
PfamPF031951.1E-357104IPR004883Lateral organ boundaries, LOB
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0010311Biological Processlateral root formation
GO:0005634Cellular Componentnucleus
Sequence ? help Back to Top
Protein Sequence    Length: 214 aa     Download sequence    Send to blast
MTGLGSPCGA CKFLRRKCVK GCVFAPYFCH EQGAAHFAAI HKVFGASNAS KLLMHLPISD  60
RCEAAVTMSY EAQARLQDPI YGCVAHIFSL QQQVVSLQAE LESFKAQTTQ GYGDGSLTSN  120
PQKEKREILT PSMQDGQLFF HPTMASNSSV KSESQLFSTN DCFTSVSTQY SEGYEPDLCM  180
PDYNSNPSCN MQGSGYHDMD DLQSVAFSYL NEA*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5ly0_A2e-3531217123LOB family transfactor Ramosa2.1
5ly0_B2e-3531217123LOB family transfactor Ramosa2.1
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtActs 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
SourceLink
PlantRegMapSeita.6G253100.1.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Induced by auxin (PubMed:15829602, PubMed:15960615). Induced by ethylene (PubMed:15960615). {ECO:0000269|PubMed:15829602, ECO:0000269|PubMed:15960615}.
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankJN6726701e-105JN672670.1 Eragrostis tef bio-material GRIN PI524434 clone Tefdw3b, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004974249.11e-160LOB domain-containing protein 29
SwissprotQ5UG132e-65LBD_ORYSJ; LOB domain-containing protein CRL1
TrEMBLK3YLN21e-158K3YLN2_SETIT; Uncharacterized protein
STRINGSi015156m1e-159(Setaria italica)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP25013893
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G58190.19e-68lateral organ boundaries-domain 29
Publications ? help Back to Top
  1. 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]
  2. 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]
  3. 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]