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 KN538784.1_FGP010
Organism
Oryza longistaminata
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza
Family ARF
Protein Properties Length: 865aa    MW: 95836.2 Da    PI: 7.5731
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
KN538784.1_FGP010genomeBGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B334.24.4e-112593045299
                        .EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE-S CS
                 B3  52 yrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvfrk 99 
                        + ++++r++l++GW+ Fv+a++L +gD ++F   + +++el+v+v+r+
  KN538784.1_FGP010 259 HLGQPRRHLLQSGWSVFVSAKRLVAGDAFIFL--RGENGELRVGVRRA 304
                        467899**************************..449999*****996 PP
2Auxin_resp116.32.7e-38329411183
         Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                        a+ha++t+++F+v+Y+Pr+s++eFvv++++++++lk+++s+GmRfkm+fe+e+++e+r++Gt+vg+ d+dp  Wp+SkWrsLk
  KN538784.1_FGP010 329 AWHAVNTGTMFTVYYKPRTSPAEFVVPYDRYMESLKRNYSIGMRFKMRFEGEEAPEQRFTGTIVGMGDSDPAGWPESKWRSLK 411
                        89*******************************************************************************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.101.6E-37152223IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019362.09E-24154218IPR015300DNA-binding pseudobarrel domain
CDDcd100177.19E-15157303No hitNo description
SMARTSM010191.1E-6159305IPR003340B3 DNA binding domain
PROSITE profilePS508638.839255305IPR003340B3 DNA binding domain
PfamPF023622.6E-8256304IPR003340B3 DNA binding domain
SuperFamilySSF1019363.14E-11259332IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.101.6E-37268318IPR015300DNA-binding pseudobarrel domain
PfamPF065071.3E-35329411IPR010525Auxin response factor
PfamPF023095.3E-8762846IPR033389AUX/IAA domain
SuperFamilySSF542776.87E-10774849No hitNo description
PROSITE profilePS5174516.124779865IPR000270PB1 domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009725Biological Processresponse to hormone
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 865 aa     Download sequence    Send to blast
MMVADWKVKK YLGYNLCCSI LRSFRVGARS YAGGGGGGGG GGGGEDALFT ELWSACAGPL  60
VTVPRVGEKV FYFPQGHIEQ VEASTNQVGE QRMQLYNLPW KILCEVMNVE LKAEPDTDEV  120
YAQLTLLPES KQQEDNGSTE EEVPSAPAAG HVRPRVHSFC KTLTASDTST HGGFSVLRRH  180
ADECLPPLDM SRQPPTQELV AKDLHGVEWR FRHIFRGDHS SNIWSCSSFL GQVVYASICP  240
CDVRVVLIDY VVLPEFRLHL GQPRRHLLQS GWSVFVSAKR LVAGDAFIFL RGENGELRVG  300
VRRAMRQQTN VPSSVISSHS MHLGVLATAW HAVNTGTMFT VYYKPRTSPA EFVVPYDRYM  360
ESLKRNYSIG MRFKMRFEGE EAPEQRFTGT IVGMGDSDPA GWPESKWRSL KVRWDEASSI  420
PRPERVSPWQ IEPAVSPPPV NPLPVPRTKR LRPNATALPA DSSAIAKEAA TKVVVESEPN  480
GTQRTFQTQE NATPKSGFGN SSELESAQKS IMRPSGFDRE KNNTPIQWKL GSDGRMQMSK  540
PESYSEMLSG FQPPKDVQTP QGFCSLPEQI TAGHSNFWHT VNAQYQDQQS NHNMFPSSWS  600
FMPPNTRLGL NKQNYSMIQE AGVLSQRPGN TKFGNGVYAA LPGRGTEQYS GGWFGHMMPN  660
SHMDDTQPRL IKPKPLVVTH GDVQKAKGAS CKLFGIHLDS PAKSEPLKSP SSVVYDGTPQ  720
TPGATEWRRP DVTEVEKSSD PSKAMKPLDT PQPDSVPEKP SSQQASRNMS CKSQGVSTRS  780
CKKVHKQGIA LGRSVDLTKF NGYEELIAEL DDMFDFNGEL KGPKKEWMVV YTDNEGDMML  840
VGDDPWIFAP VQPDGTGYLS CYLAT
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-168324333354Auxin response factor 1
4ldw_A1e-168324333354Auxin response factor 1
4ldw_B1e-168324333354Auxin response factor 1
4ldx_A1e-168324333354Auxin response factor 1
4ldx_B1e-168324333354Auxin response factor 1
Search in ModeBase
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).
Cis-element ? help Back to Top
SourceLink
PlantRegMapKN538784.1_FGP010
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By auxin under light or dark conditions and gravitropic stimulation of coleptile. {ECO:0000269|PubMed:12369618, ECO:0000269|PubMed:17408882}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK0719970.0AK071997.1 Oryza sativa Japonica Group cDNA clone:J013091N24, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015617186.10.0auxin response factor 23 isoform X1
RefseqXP_015617187.10.0auxin response factor 23 isoform X1
RefseqXP_015617188.10.0auxin response factor 23 isoform X2
SwissprotQ2R3F50.0ARFW_ORYSJ; Auxin response factor 23
TrEMBLA0A0E0R9370.0A0A0E0R937_ORYRU; Auxin response factor
STRINGORUFI11G16290.20.0(Oryza rufipogon)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP117836111
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G62000.30.0auxin response factor 2
Publications ? help Back to Top
  1. Contreras I,Ortiz-Zapater E,Castilho LM,Aniento F
    Characterization of Cop I coat proteins in plant cells.
    Biochem. Biophys. Res. Commun., 2000. 273(1): p. 176-82
    [PMID:10873582]
  2. Kobayashi-Uehara A,Shimosaka E,Handa H
    Cloning and expression analyses of cDNA encoding an ADP-ribosylation factor from wheat: tissue-specific expression of wheat ARF.
    Plant Sci., 2001. 160(3): p. 535-542
    [PMID:11166441]
  3. Ren H, et al.
    Combinative effects of a bacterial type-III effector and a biocontrol bacterium on rice growth and disease resistance.
    J. Biosci., 2006. 31(5): p. 617-27
    [PMID:17301500]
  4. Song Y,You J,Xiong L
    Characterization of OsIAA1 gene, a member of rice Aux/IAA family involved in auxin and brassinosteroid hormone responses and plant morphogenesis.
    Plant Mol. Biol., 2009. 70(3): p. 297-309
    [PMID:19266169]
  5. Kitajima A, et al.
    The rice alpha-amylase glycoprotein is targeted from the Golgi apparatus through the secretory pathway to the plastids.
    Plant Cell, 2009. 21(9): p. 2844-58
    [PMID:19767453]
  6. Kishimoto N, et al.
    Identification of the duplicated segments in rice chromosomes 1 and 5 by linkage analysis of cDNA markers of known functions.
    Theor. Appl. Genet., 1994. 88(6-7): p. 722-6
    [PMID:24186168]
  7. Sugano SS, et al.
    CRISPR/Cas9-mediated targeted mutagenesis in the liverwort Marchantia polymorpha L.
    Plant Cell Physiol., 2014. 55(3): p. 475-81
    [PMID:24443494]
  8. Kaneko K, et al.
    N-Glycomic and Microscopic Subcellular Localization Analyses of NPP1, 2 and 6 Strongly Indicate that trans-Golgi Compartments Participate in the Golgi to Plastid Traffic of Nucleotide Pyrophosphatase/Phosphodiesterases in Rice.
    Plant Cell Physiol., 2016. 57(8): p. 1610-28
    [PMID:27335351]