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 XP_009133993.1
Organism
Brassica rapa
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: 518aa    MW: 55446.4 Da    PI: 9.2713
Description GRF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009133993.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1WRC79.33.7e-25197240144
             WRC   1 daepgrCrRtDGKkWRCsrrvlegkklCErHlhrgrsrsrkske 44 
                     d+epgrCrRtDGKkWRCsr++++++k+CErH++rgr+rsrk++e
  XP_009133993.1 197 DPEPGRCRRTDGKKWRCSRDAVPDQKYCERHINRGRHRSRKPVE 240
                     79***************************************998 PP
2QLQ51.53e-18133169137
             QLQ   1 saFTaaQlqlLksQilAyKyLaanqPvPpeLlqaiqk 37 
                     ++F+ +Q+++L++Q+l+yKy+ an+PvP+ Ll+ ++k
  XP_009133993.1 133 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: 518 aa     Download sequence    Send to blast
MDLGVRFEGS VSGHENGSPG QTELGSGFGN KQERSGFDGE DFWRSSKLSR TLIDGFSSSS  60
AAAKTLSFHQ GIPLLRSTSV DPRRQEQMLS FSPASDKSDV SPYLQYCRNS GYGLGGMMNT  120
NSMHGSLLTG AKGPFSLTQW AELEQQALIY KYITANVPVP SSLLLSLKKS FFPYGSLPPN  180
SFGWGSFHLG FSGGNMDPEP GRCRRTDGKK WRCSRDAVPD QKYCERHINR GRHRSRKPVE  240
GLNGHNTNAT AAASAASKAA AATTVVATRG SDNNNSLAAV GTHHHHAIPS MANSDRVQNA  300
QGASVFPATM NLQSKESHQK QSSSPFEFGL ISSDSLLNPS HKQASYANSS KGFGSYLDFS  360
NQAKNSNVDS WTEELKSDWT QLSMSIPMAP SSPVQDKLAL SPLRLSREFD PAIHMGLGVN  420
TEFLEPVKKA NNWIPISWGN NNNSMGGPLG EVLNSTTNSP KFGSSPTGVL QKSTFGSLSN  480
SSSGSSTVLG DNSNKNCDGK DPLGPTTLMN SSAPAPSM
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:15326298, ECO:0000269|PubMed:22419826, ECO:0000269|PubMed:22751317}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009133993.1
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_009133993.10.0PREDICTED: growth-regulating factor 1
SwissprotO810010.0GRF1_ARATH; Growth-regulating factor 1
TrEMBLK4GWY80.0K4GWY8_BRARP; Growth-regulating factor 1 (Fragment)
STRINGBra000575.1-P0.0(Brassica rapa)
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]