PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Rsa1.0_00333.1_g00006.1
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: 384aa    MW: 42478 Da    PI: 8.4985
Description GRF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_00333.1_g00006.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1WRC82.82.9e-26142186145
                      WRC   1 daepgrCrRtDGKkWRCsrrvlegkklCErHlhrgrsrsrkskee 45 
                              d+epgrCrRtDGKkWRCsr+v +g+k+CErH+hrgr+rsrk++e+
  Rsa1.0_00333.1_g00006.1 142 DPEPGRCRRTDGKKWRCSRDVFPGHKYCERHMHRGRNRSRKPVET 186
                              79****************************************996 PP
2QLQ552.5e-1973109137
                      QLQ   1 saFTaaQlqlLksQilAyKyLaanqPvPpeLlqaiqk 37 
                              s F++aQ+q+L+ Q+l+y+y++a++ +P+eLl++i+k
  Rsa1.0_00333.1_g00006.1  73 SFFSWAQWQELELQALIYRYMMAGAAIPQELLLPIKK 109
                              67*********************************86 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM009511.2E-1173109IPR014978Glutamine-Leucine-Glutamine, QLQ
PROSITE profilePS5166620.91474109IPR014978Glutamine-Leucine-Glutamine, QLQ
PfamPF088805.3E-1375107IPR014978Glutamine-Leucine-Glutamine, QLQ
PROSITE profilePS5166726.714142186IPR014977WRC domain
PfamPF088794.7E-22143185IPR014977WRC 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: 384 aa     Download sequence    Send to blast
MDLQLKQWRS QQQQQTESED QPSAAKIPKH VFDQIQSHTA TSTALPLFSS EPTSSKLSSL  60
SHDSSSRFPK IGSFFSWAQW QELELQALIY RYMMAGAAIP QELLLPIKKS LLHLPPSYFL  120
HHPLHHLPHY QPAWYMGKGA MDPEPGRCRR TDGKKWRCSR DVFPGHKYCE RHMHRGRNRS  180
RKPVETPTVN ATTTTTTTSI APASAPAAKA SLFAFGGGGE EVGQGESSCF FFSGSSSSSS  240
SQLLNLSQSS ELKQGSNNHK RPYESHNGFG NNSSDGGHTL RHFFDDWPRS EADNSSSPMN  300
STTCLSISMP VNSSSDVSLK LFTGNEEEEA RSNNNGRDQQ NMSWWSGGGS LPNHHNMGGP  360
LAEALRSSSS SSPTSVLHQL WRTV
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
PlantRegMapRsa1.0_00333.1_g00006.1
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
GenBankAY1026360.0AY102636.1 Arabidopsis thaliana transcription activator (GRF3) mRNA, complete cds.
GenBankBT0264720.0BT026472.1 Arabidopsis thaliana At2g36400 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009143588.10.0PREDICTED: growth-regulating factor 3-like
RefseqXP_013748432.10.0growth-regulating factor 3
SwissprotQ9SJR51e-178GRF3_ARATH; Growth-regulating factor 3
TrEMBLA0A397Z8C60.0A0A397Z8C6_BRACM; Uncharacterized protein
STRINGBra005268.1-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
AT2G36400.14e-70growth-regulating factor 3
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. 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]