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 ORGLA12G0109100.1
Organism
Oryza glaberrima
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: 841aa    MW: 92300.2 Da    PI: 6.5487
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
ORGLA12G0109100.1genomeAGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B375.46.5e-24148249199
                        EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE- CS
                 B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkld 85 
                        f+k+lt sd++++g +++ +++a+e+       +  ++ +++l+ +d++g +W++++i+r++++r++l++GW+ Fv+a++L +gD ++F   
  ORGLA12G0109100.1 148 FCKTLTASDTSTHGGFSVLRRHADEClppldmsQ--HPPTQELVAKDLHGVEWRFRHIFRGQPRRHLLQSGWSVFVSAKRLVAGDAFIFL-- 235
                        99*****************************544..455569************************************************.. PP

                        SSSEE..EEEEE-S CS
                 B3  86 grsefelvvkvfrk 99 
                        + +++el+v+v+r+
  ORGLA12G0109100.1 236 RGENGELRVGVRRA 249
                        449999*****996 PP
2Auxin_resp112.15.2e-37274356183
         Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                        a+ha++t+++F+v+Y+Pr+s+seFvv+++ +e++lk++ s+GmRfkm fe+e+++e+r++Gt+vgv d+dp+ W +SkWrsLk
  ORGLA12G0109100.1 274 AWHAVNTGTMFTVYYKPRTSPSEFVVPRDLYEESLKRNHSIGMRFKMTFEGEEAAEQRFTGTIVGVGDSDPSGWADSKWRSLK 356
                        89*******************************************************************************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.102.8E-42141263IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019362.94E-41141277IPR015300DNA-binding pseudobarrel domain
CDDcd100177.08E-22146248No hitNo description
SMARTSM010199.8E-24148250IPR003340B3 DNA binding domain
PfamPF023628.3E-22148249IPR003340B3 DNA binding domain
PROSITE profilePS5086311.899148250IPR003340B3 DNA binding domain
PfamPF065073.3E-34274356IPR010525Auxin response factor
PfamPF023091.1E-11700798IPR033389AUX/IAA domain
PROSITE profilePS5174523.837713797IPR000270PB1 domain
SuperFamilySSF542775.89E-12715789No hitNo description
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:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 841 aa     Download sequence    Send to blast
MAAAATAAAS PVEGLTGGGG GGGGGVDGLF VELWRACAGP LVTVPAVGER VFYLPQGHIE  60
QVEASTNQVA EQQGAPLYNL PWKIPCKVMN VELKAEPDTD EVYAQLTLLP EKQQDGNGSG  120
NGYVSKDKVE EEEVVPPAAT ERPRVHSFCK TLTASDTSTH GGFSVLRRHA DECLPPLDMS  180
QHPPTQELVA KDLHGVEWRF RHIFRGQPRR HLLQSGWSVF VSAKRLVAGD AFIFLRGENG  240
ELRVGVRRAM RQQANIPSSV ISSHSMHLGV LATAWHAVNT GTMFTVYYKP RTSPSEFVVP  300
RDLYEESLKR NHSIGMRFKM TFEGEEAAEQ RFTGTIVGVG DSDPSGWADS KWRSLKVRWD  360
EAASVPRPDR VSPWQIEPAN SPSPVNPLPA PRTKRARPNV LASSPDLSAV NKEVASKVMA  420
NSQQNGLPRA FHSQENMNLR SRFGDSNELN TSQKLTTWSS GSNQEKNNVS VQRELGSQSW  480
MQMRRPDGSS EILSGFQPLK DTRNPLSSFP SQISGNRSNT WNTINVHYPD QNVNHNMYPG  540
TWSLMPPNTG FGVNQQNYLM TPDITLPQRS LNAKFGGNGA FTSLRAHGID QRSSGWLGHI  600
EPSSHIDDAS SSLIKPQPLV IDHNVQKAKG SSCMLFGISL DSPAKPELLI SPPSVAFDGK  660
LQQDALEEDE CSDPSKTVKP LDGAQHDSAT EKHQSCPDGT KNIQSKQQNG SSRSCKKVHK  720
QGIALGRSID LTKFTCYDEL IAELDQMFDF NGELNSSSKN WMVVYTDNEG DMMLVGDDPW  780
NEFCNMVHKI FIYTREEVQK MNPGALNSRS EDSRSTSVER GLVGEGLQGG LSTPSLNSEN  840
C
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-169193839359Auxin response factor 1
4ldw_A1e-169193839359Auxin response factor 1
4ldw_B1e-169193839359Auxin response factor 1
4ldx_A1e-169193839359Auxin response factor 1
4ldx_B1e-169193839359Auxin 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
PlantRegMapORGLA12G0109100.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK0652540.0AK065254.1 Oryza sativa Japonica Group cDNA clone:J013002J11, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015620411.10.0auxin response factor 24 isoform X1
RefseqXP_015620412.10.0auxin response factor 24 isoform X1
SwissprotQ2QQX60.0ARFX_ORYSJ; Auxin response factor 24
TrEMBLI1R6D50.0I1R6D5_ORYGL; Auxin response factor
STRINGORGLA12G0109100.10.0(Oryza glaberrima)
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. Kikuchi S, et al.
    Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice.
    Science, 2003. 301(5631): p. 376-9
    [PMID:12869764]
  2. Li G, et al.
    Rice actin-binding protein RMD is a key link in the auxin-actin regulatory loop that controls cell growth.
    Proc. Natl. Acad. Sci. U.S.A., 2014. 111(28): p. 10377-82
    [PMID:24982173]