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 Gorai.001G251700.1
Common NameB456_001G251700
Organism
Gossypium raimondii
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Malvoideae; Gossypium
Family LBD
Protein Properties Length: 227aa    MW: 24701.3 Da    PI: 6.4056
Description LBD family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.001G251700.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1DUF260124.84.2e-3971071100
              DUF260   1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleql 90 
                         +C aCk+lrrkC+++Cv+apyf +eq + +fa++hk+FGasnv+kll++lp ++r +a+ ++ yeA+ar++dPvyG+v++i++lqqq+++l
  Gorai.001G251700.1   7 PCGACKFLRRKCVRGCVFAPYFSHEQgATHFAAIHKVFGASNVSKLLAHLPVTDRCEAAVTISYEAQARLQDPVYGCVSHIFALQQQVAKL 97 
                         7*************************89*************************************************************** PP

              DUF260  91 kaelallkee 100
                         +a+la+l e+
  Gorai.001G251700.1  98 EAQLASLTEQ 107
                         ****998876 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5089122.36108IPR004883Lateral organ boundaries, LOB
PfamPF031955.1E-387104IPR004883Lateral organ boundaries, LOB
Sequence ? help Back to Top
Protein Sequence    Length: 227 aa     Download sequence    Send to blast
MTGSGSPCGA CKFLRRKCVR GCVFAPYFSH EQGATHFAAI HKVFGASNVS KLLAHLPVTD  60
RCEAAVTISY EAQARLQDPV YGCVSHIFAL QQQVAKLEAQ LASLTEQASQ SIANGSVTSN  120
PNDGKLPCSQ LQDVQSWFHP DNSSMAPNFN PSSYGEHGFS NPNSSGIYYE NSIVSSGEDH  180
ISFTTFVEAP HSMSSSLDMQ TNNRQWSFQD VDDLQSMAFR YAQNSR*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5ly0_A7e-3631017104LOB family transfactor Ramosa2.1
5ly0_B7e-3631017104LOB family transfactor Ramosa2.1
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in unelongating basal internodes, at the base of shoot in parenchyma cells adjacent to the peripheral vascular cylinder of the stem, and root pericycle cells (PubMed:15829602). Expressed in lateral and adventitious root primordia, tiller primordia, vascular tissues, scutellum, and young pedicels (PubMed:15960615). {ECO:0000269|PubMed:15829602, ECO:0000269|PubMed:15960615}.
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}.
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}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_012448615.11e-170PREDICTED: LOB domain-containing protein 29-like
SwissprotQ5UG132e-66LBD_ORYSJ; LOB domain-containing protein CRL1
TrEMBLA0A0D2PWG01e-169A0A0D2PWG0_GOSRA; Uncharacterized protein
TrEMBLA0A1U8MDP51e-168A0A1U8MDP5_GOSHI; LOB domain-containing protein 29-like
STRINGGorai.001G251700.11e-169(Gossypium raimondii)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM10828359
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G58190.19e-67lateral 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]
  4. Paterson AH, et al.
    Repeated polyploidization of Gossypium genomes and the evolution of spinnable cotton fibres.
    Nature, 2012. 492(7429): p. 423-7
    [PMID:23257886]