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 Rsa1.0_00934.1_g00009.1
Organism
Raphanus sativus
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: 517aa    MW: 55137.1 Da    PI: 9.6785
Description GRF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_00934.1_g00009.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1WRC78.37.4e-25197241145
                      WRC   1 daepgrCrRtDGKkWRCsrrvlegkklCErHlhrgrsrsrkskee 45 
                              d+epgrCrRtDGKkWRCsr++++++k+CErH++rgr+rsrk++e 
  Rsa1.0_00934.1_g00009.1 197 DPEPGRCRRTDGKKWRCSRDAVPDQKYCERHINRGRHRSRKPVEG 241
                              79****************************************985 PP
2QLQ51.53e-18133169137
                      QLQ   1 saFTaaQlqlLksQilAyKyLaanqPvPpeLlqaiqk 37 
                              ++F+ +Q+++L++Q+l+yKy+ an+PvP+ Ll+ ++k
  Rsa1.0_00934.1_g00009.1 133 GPFSLTQWAELEQQALIYKYITANVPVPSSLLLSLKK 169
                              59******************************99875 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM009511.3E-10133169IPR014978Glutamine-Leucine-Glutamine, QLQ
PfamPF088802.1E-12134166IPR014978Glutamine-Leucine-Glutamine, QLQ
PROSITE profilePS5166620.723134169IPR014978Glutamine-Leucine-Glutamine, QLQ
PROSITE profilePS5166725.954197241IPR014977WRC domain
PfamPF088793.3E-21198240IPR014977WRC domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009624Biological Processresponse to nematode
GO:0048364Biological Processroot development
GO:0048366Biological Processleaf development
GO:0061062Biological Processregulation of nematode larval development
GO:0005634Cellular Componentnucleus
GO:0005524Molecular FunctionATP binding
Sequence ? help Back to Top
Protein Sequence    Length: 517 aa     Download sequence    Send to blast
MDLGVRVQGS VSGHENGSPG QTELGSGFGN KQERSGFDGE DLWRSSKLTR TSIDGFSSSS  60
AAAKTLSFHQ GIPLLRSTSL DPRRQEQMLS FSPASDKSDV SPYLQYGRNS GYGLGGIMNT  120
NSMHGSLLTG AKGPFSLTQW AELEQQALIY KYITANVPVP SSLLLSLKKS FFPYGSLPPN  180
SFGWGSFHLG FSGGNMDPEP GRCRRTDGKK WRCSRDAVPD QKYCERHINR GRHRSRKPVE  240
GQNGHNTNAA AAASAASKAA AAATTVVAMR GSDNNNSLAA VGTHHLANPS MANSDRVQNA  300
QGASVFPAAM NLQSKESHQK QSSNPFQFGL ISSDSLLNPS HKQPSYANSS KGFGSYLDFS  360
NQAKNSNVDS WTEELKSDWT QLSMSIPMAP SSPVQDKLAL SPLRLSREFD PAIHMGLGVN  420
TEFLEPVKKT NNWIPISWGN NNSMGGPLGE VLNSTTNSPK FGSSPTGVLQ KSTFGSLSNS  480
SSGSSTVLGD NSNKNCDGKD PLGPTTLMNS SASAPSL
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:15326298, ECO:0000269|PubMed:22419826, ECO:0000269|PubMed:22751317}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_00934.1_g00009.1
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
GenBankJN6989860.0JN698986.1 Brassica rapa subsp. pekinensis growth-regulating factor 1 mRNA, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018465087.10.0PREDICTED: growth-regulating factor 1
SwissprotO810010.0GRF1_ARATH; Growth-regulating factor 1
TrEMBLA0A3N6R4440.0A0A3N6R444_BRACR; Uncharacterized protein
STRINGBo3g042310.10.0(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM14542886
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G22840.10.0growth-regulating factor 1
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. 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]
  3. 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]