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 RrC1990_p3
Organism
Raphanus raphanistrum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus
Family GRF
Protein Properties Length: 275aa    MW: 30149.3 Da    PI: 9.8975
Description GRF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC1990_p3genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1WRC82.15e-2657101145
         WRC   1 daepgrCrRtDGKkWRCsrrvlegkklCErHlhrgrsrsrkskee 45 
                 d+epgrCrRtDGKkWRCsr+v +g+k+CErH+hrgr+rsrk++e+
  RrC1990_p3  57 DPEPGRCRRTDGKKWRCSRDVFAGHKYCERHMHRGRNRSRKPVET 101
                 79****************************************996 PP
2QLQ53.76.4e-191248137
         QLQ  1 saFTaaQlqlLksQilAyKyLaanqPvPpeLlqaiqk 37
                s F+++Q+q+L+ Q+l+y+y++a++ vP+eLl++i+k
  RrC1990_p3 12 SFFSWTQWQELELQALIYRYMLAGAAVPQELLLPIKK 48
                67*********************************86 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM009518.0E-121248IPR014978Glutamine-Leucine-Glutamine, QLQ
PROSITE profilePS5166619.8571348IPR014978Glutamine-Leucine-Glutamine, QLQ
PfamPF088807.3E-131446IPR014978Glutamine-Leucine-Glutamine, QLQ
PROSITE profilePS5166726.04657101IPR014977WRC domain
PfamPF088795.6E-2258100IPR014977WRC domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0005524Molecular FunctionATP binding
Sequence ? help Back to Top
Protein Sequence    Length: 275 aa     Download sequence    Send to blast
MEKPAGADRM GSFFSWTQWQ ELELQALIYR YMLAGAAVPQ ELLLPIKKRY LGRGAMDPEP  60
GRCRRTDGKK WRCSRDVFAG HKYCERHMHR GRNRSRKPVE TPTVNATATT TSMAAPVTAA  120
PSASPSSFAF GGGGESKMKQ ESNNNNNKRP YESHNGFGSN GSDGGHILRH FFDDWPRSEA  180
DNSSSPMSSA TCLSISMPGN SSSDVSLKLS TGNEEEARNN NSGRDQQNMS WWSGGGTTHN  240
HHHMGRPLAE ALRSSSSSSP TSVLHQLGVS TQAFR
Functional Description ? help Back to Top
Source Description
UniProtTranscription activator that plays a role in the regulation of cell expansion in leaf and cotyledons tissues. Component of a network formed by miR396, the GRFs and their interacting factors (GIFs) acting in the regulation of meristem function, at least partially through the control of cell proliferation. {ECO:0000250}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: microRNA 396 (miR396a or miR396b) negatively regulates growth-regulating factors (GRF1-4 and GRF7-9). {ECO:0000269|PubMed:15200956, ECO:0000269|PubMed:19453503, ECO:0000269|PubMed:20023165}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC0069191e-106AC006919.6 Arabidopsis thaliana chromosome 2 clone F1O11 map g6825, complete sequence.
GenBankAK1174171e-106AK117417.1 Arabidopsis thaliana At2g36400 mRNA for unknown protein, complete cds, clone: RAFL17-02-B13.
GenBankAY1026361e-106AY102636.1 Arabidopsis thaliana transcription activator (GRF3) mRNA, complete cds.
GenBankBT0264721e-106BT026472.1 Arabidopsis thaliana At2g36400 mRNA, complete cds.
GenBankCP0026851e-106CP002685.1 Arabidopsis thaliana chromosome 2, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009133081.11e-162PREDICTED: growth-regulating factor 3-like
RefseqXP_013734366.11e-162growth-regulating factor 3-like
RefseqXP_022549083.11e-162growth-regulating factor 3-like
SwissprotQ8L8A71e-97GRF4_ARATH; Growth-regulating factor 4
TrEMBLA0A397ZW071e-163A0A397ZW07_BRACM; Uncharacterized protein
STRINGBra023066.1-P1e-162(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM19262667
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G52910.11e-83growth-regulating factor 4
Publications ? help Back to Top
  1. Kuijt SJ, et al.
    Interaction between the GROWTH-REGULATING FACTOR and KNOTTED1-LIKE HOMEOBOX families of transcription factors.
    Plant Physiol., 2014. 164(4): p. 1952-66
    [PMID:24532604]
  2. Cao Y,Han Y,Jin Q,Lin Y,Cai Y
    Comparative Genomic Analysis of the GRF Genes in Chinese Pear (Pyrus bretschneideri Rehd), Poplar (Populous), Grape (Vitis vinifera), Arabidopsis and Rice (Oryza sativa).
    Front Plant Sci, 2016. 7: p. 1750
    [PMID:27933074]