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 GSBRNA2T00132470001
Common NameGSBRNA2T00132470001, LOC106388118, LOC106388119
Organism
Brassica napus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
Family GRF
Protein Properties Length: 369aa    MW: 40513.9 Da    PI: 9.011
Description GRF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00132470001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1WRC79.62.9e-25137181145
                  WRC   1 daepgrCrRtDGKkWRCsrrvlegkklCErHlhrgrsrsrkskee 45 
                          d+epgrCrRtDGKkWRCsr+v +g+k+CErH+hrgr+rsrk++e+
  GSBRNA2T00132470001 137 DPEPGRCRRTDGKKWRCSRDVFAGHKYCERHVHRGRNRSRKPVET 181
                          79****************************************996 PP
2QLQ53.86e-1972108137
                  QLQ   1 saFTaaQlqlLksQilAyKyLaanqPvPpeLlqaiqk 37 
                          s F++aQ+q+L+ Q+l+y+y++a++ vP+eLl++i+k
  GSBRNA2T00132470001  72 SFFSWAQWQELELQALIYRYMLAGAAVPQELLLPIKK 108
                          67*********************************86 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM009515.3E-1272108IPR014978Glutamine-Leucine-Glutamine, QLQ
PROSITE profilePS5166620.24773108IPR014978Glutamine-Leucine-Glutamine, QLQ
PfamPF088806.3E-1374106IPR014978Glutamine-Leucine-Glutamine, QLQ
PROSITE profilePS5166725.279137181IPR014977WRC domain
PfamPF088792.6E-21138180IPR014977WRC 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: 369 aa     Download sequence    Send to blast
MDLQLKQWRS QQVQTESEPQ PSAAKIPRHA FDPIQSQTAT STVLPLFAPE PASSKLSSLC  60
PDSSSRFSKM GSFFSWAQWQ ELELQALIYR YMLAGAAVPQ ELLLPIKKSL LHLSPSYFLQ  120
HLPHYQPAWY LGRGAMDPEP GRCRRTDGKK WRCSRDVFAG HKYCERHVHR GRNRSRKPVE  180
TPTVNATTTT SMAAPPTAAP SSTPSAFAFG GGQEVGQRGS SSFFFSSQSC SEMKQERNNN  240
KRPYESHNGF GSNGSDGGHI LRHFFDDWPR SEADNSSSPM SSATCLSISM PGNSSSDVSL  300
KLSTGNEEEA RSNNIGRDQQ NMSWWSGGGT NHNHHHMGGP LAEALRSSSS SSPTSVLHQL  360
GVSTQAFH*
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed during the early stages of leaf development and expression decreases with the maturation of the leaf. {ECO:0000269|PubMed:20023165}.
UniprotTISSUE SPECIFICITY: Strongly expressed in actively growing and developing tissues, such as roots, upper stems, and shoot tips containing the shoot apical meristem (SAM) and flower buds. Also expressed in mature flowers, but weakly expressed in mature stems and leaves. {ECO:0000269|PubMed:12974814}.
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. microRNA396-GRF1/GRF3 regulatory module acts as a developmental regulator in the reprogramming of root cells during cyst nematode infection, leading to the formation of the syncytium. {ECO:0000269|PubMed:12974814, ECO:0000269|PubMed:22419826}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00132470001
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: microRNA 396 (miR396a or miR396b) negatively regulates growth-regulating factors (GRF1-4 and GRF7-9). Up-regulated in response to cyst nematode infection. {ECO:0000269|PubMed:15200956, ECO:0000269|PubMed:19453503, ECO:0000269|PubMed:20023165, ECO:0000269|PubMed:22419826}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1174171e-177AK117417.1 Arabidopsis thaliana At2g36400 mRNA for unknown protein, complete cds, clone: RAFL17-02-B13.
GenBankAY1026361e-177AY102636.1 Arabidopsis thaliana transcription activator (GRF3) mRNA, complete cds.
GenBankBT0264721e-177BT026472.1 Arabidopsis thaliana At2g36400 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013683568.10.0growth-regulating factor 3-like isoform X1
RefseqXP_013683569.10.0growth-regulating factor 3-like
RefseqXP_022554772.10.0growth-regulating factor 3-like isoform X2
SwissprotQ9SJR50.0GRF3_ARATH; Growth-regulating factor 3
TrEMBLA0A3N6RMT70.0A0A3N6RMT7_BRACR; Uncharacterized protein
STRINGBra023066.1-P0.0(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-106growth-regulating factor 4
Publications ? help Back to Top
  1. Casadevall R,Rodriguez RE,Debernardi JM,Palatnik JF,Casati P
    Repression of growth regulating factors by the microRNA396 inhibits cell proliferation by UV-B radiation in Arabidopsis leaves.
    Plant Cell, 2013. 25(9): p. 3570-83
    [PMID:24076976]
  2. Vercruyssen L, et al.
    ANGUSTIFOLIA3 binds to SWI/SNF chromatin remodeling complexes to regulate transcription during Arabidopsis leaf development.
    Plant Cell, 2014. 26(1): p. 210-29
    [PMID:24443518]
  3. Liu J,Rice JH,Chen N,Baum TJ,Hewezi T
    Synchronization of developmental processes and defense signaling by growth regulating transcription factors.
    PLoS ONE, 2014. 9(5): p. e98477
    [PMID:24875638]
  4. Chalhoub B, et al.
    Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome.
    Science, 2014. 345(6199): p. 950-3
    [PMID:25146293]
  5. 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]