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 GSBRNA2T00044758001
Common NameGSBRNA2T00044758001
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 ARF
Protein Properties Length: 831aa    MW: 92666.3 Da    PI: 8.5244
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00044758001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B3772e-24293394199
                          EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEE CS
                   B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFk 83 
                          f k+lt+sd+++ g +++p+ +ae++        +++ +  t+  +d +g +W++++iyr++++r++lt+GW++Fv++++L +gD++vF+
  GSBRNA2T00044758001 293 FAKTLTQSDANNGGGFSVPRYCAETIfprldynAEPPVQ--TILAKDVHGDVWKFRHIYRGTPRRHLLTTGWSNFVNQKKLVAGDSIVFM 380
                          89****************************985444444..8999********************************************* PP

                          E-SSSEE..EEEEE-S CS
                   B3  84 ldgrsefelvvkvfrk 99 
                            + +++ l+v+++r+
  GSBRNA2T00044758001 381 --RAESGDLCVGIRRA 394
                          ..4489999*****97 PP
2Auxin_resp111.49.2e-37452535183
           Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrl.sGtvvgvsdldpvrWpnSkWrsLk 83 
                          aa+ a ++  FevvY+PrastseF+vk+ + ++a++++++ GmRfkmafetedss++++ +Gtv++vs +dp+rWpnS+Wr+L+
  GSBRNA2T00044758001 452 AATLAINGRGFEVVYYPRASTSEFCVKALDARAAMRIPWCSGMRFKMAFETEDSSRISWfMGTVSAVSVSDPIRWPNSPWRLLQ 535
                          6778889999************************************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019361.1E-29283394IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.102.8E-38286400IPR015300DNA-binding pseudobarrel domain
CDDcd100171.76E-21291393No hitNo description
PfamPF023622.2E-22293394IPR003340B3 DNA binding domain
SMARTSM010191.7E-22293395IPR003340B3 DNA binding domain
PROSITE profilePS5086313.267293395IPR003340B3 DNA binding domain
PfamPF065071.2E-30452535IPR010525Auxin response factor
PROSITE profilePS5174517.352744822IPR000270PB1 domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009734Biological Processauxin-activated signaling pathway
GO:0005634Cellular Componentnucleus
GO:0016021Cellular Componentintegral component of membrane
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 831 aa     Download sequence    Send to blast
MRSITCKTKS DRLKKTFRDQ ISDPLVYLCD EIALVTCKYY WMDINGDAQY FRNVLEARFR  60
ELPQGSDSDS GSEAGNGRPM KLPCNVGYIS NFIIFFLHSV LSIFMPGIKG LTYQIVTIFG  120
AKPNLSPSYT RTLFISLCTT KVNSYPILKQ KLSCRIFRFS RNQEKGFFRT ESSRTCLRST  180
TTVQGIITFV RNDKCNGSDE KRIRERFRST AMACMCWRHG HAENAYDHVD FKNLPIPPMV  240
LCRVLAIKYM ADPESDEVFA KLRLIPLKDD DHDYGDGQEG NGFETNSEKT PSFAKTLTQS  300
DANNGGGFSV PRYCAETIFP RLDYNAEPPV QTILAKDVHG DVWKFRHIYR GTPRRHLLTT  360
GWSNFVNQKK LVAGDSIVFM RAESGDLCVG IRRAKRGGIG NGPEYSPGWN PIGGSCGYSS  420
LLREDESNSL RRSNCSLADR KGKVAAESVI EAATLAINGR GFEVVYYPRA STSEFCVKAL  480
DARAAMRIPW CSGMRFKMAF ETEDSSRISW FMGTVSAVSV SDPIRWPNSP WRLLQVAWDE  540
PDLLQNVKRV NPWLVELVSN VHPIPLTSFS PPRKKMRLPQ HPDYNNLINS IPVPSFPSNP  600
LIRSNPLSSV LDNVPVGLQG ARHNAHQYYG LSSSDLHHYY LNRPPPPPQP SALPLSQPLG  660
LRNIDSRNEK GFCFLTMGTT PCNDDTESKK SHIVLFGKLI LPEEQISEKG STDTANTSGG  720
SKLSSSEEGS PCSNKAHDAA GLETGHCKVF MESDDVGRTL DLSVLGSYEE LSRKLSDMFG  780
IQKAEMLSSV LYRDASGAIK YAGNEPFSEF LKTARRLTIV TEQGSESVVV *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A4e-63236556102388Auxin response factor 5
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bna.168461e-111leaf
Functional Description ? help Back to Top
Source Description
UniProtAuxin response factors (ARFs) are transcriptional factors that bind specifically to the DNA sequence 5'-TGTCTC-3' found in the auxin-responsive promoter elements (AuxREs). Could act as transcriptional activator or repressor. Formation of heterodimers with Aux/IAA proteins may alter their ability to modulate early auxin response genes expression. {ECO:0000269|PubMed:12036261}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00044758001
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankJN9794780.0JN979478.1 Brassica rapa subsp. pekinensis auxin response factor 16-2 (ARF16-2) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009137888.10.0PREDICTED: auxin response factor 16
SwissprotQ93YR90.0ARFP_ARATH; Auxin response factor 16
TrEMBLA0A078GY590.0A0A078GY59_BRANA; Auxin response factor
STRINGBra024109.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM58027130
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G30080.10.0auxin response factor 16
Publications ? help Back to Top
  1. Yang ZB, et al.
    TAA1-regulated local auxin biosynthesis in the root-apex transition zone mediates the aluminum-induced inhibition of root growth in Arabidopsis.
    Plant Cell, 2014. 26(7): p. 2889-904
    [PMID:25052716]
  2. 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]
  3. Bennett T,van den Toorn A,Willemsen V,Scheres B
    Precise control of plant stem cell activity through parallel regulatory inputs.
    Development, 2014. 141(21): p. 4055-64
    [PMID:25256342]
  4. Zhang GZ, et al.
    Ectopic expression of UGT75D1, a glycosyltransferase preferring indole-3-butyric acid, modulates cotyledon development and stress tolerance in seed germination of Arabidopsis thaliana.
    Plant Mol. Biol., 2016. 90(1-2): p. 77-93
    [PMID:26496910]
  5. Ye Y, et al.
    Germostatin resistance locus 1 encodes a PHD finger protein involved in auxin-mediated seed dormancy and germination.
    Plant J., 2016. 85(1): p. 3-15
    [PMID:26611158]
  6. Liu Z, et al.
    Repression of callus initiation by the miRNA-directed interaction of auxin-cytokinin in Arabidopsis thaliana.
    Plant J., 2016. 87(4): p. 391-402
    [PMID:27189514]
  7. Wójcikowska B,Gaj MD
    Expression profiling of AUXIN RESPONSE FACTOR genes during somatic embryogenesis induction in Arabidopsis.
    Plant Cell Rep., 2017. 36(6): p. 843-858
    [PMID:28255787]
  8. Wójcik AM,Nodine MD,Gaj MD
    miR160 and miR166/165 Contribute to the LEC2-Mediated Auxin Response Involved in the Somatic Embryogenesis Induction in Arabidopsis.
    Front Plant Sci, 2017. 8: p. 2024
    [PMID:29321785]
  9. Lin JS, et al.
    MicroRNA160 Modulates Plant Development and Heat Shock Protein Gene Expression to Mediate Heat Tolerance in Arabidopsis.
    Front Plant Sci, 2018. 9: p. 68
    [PMID:29449855]