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 LOC_Os04g43910.1
Common NameARF10, LOC4336419, Os04g0519700, OsJ_014843, OSJNBa0019D11.3, OSJNBb0061C13.15
Organism
Oryza sativa subsp. japonica
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; Oryza sativa
Family ARF
Protein Properties Length: 696aa    MW: 75244.7 Da    PI: 6.6117
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os04g43910.1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B375.27.3e-24121222199
                       EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-S CS
                B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldg 86 
                       f k+lt+sd+++ g +++p+ +ae++       ++++ +   +  +d +g +W++++iyr++++r++lt+GW+ Fv+ ++L +gD++vF+  +
  LOC_Os04g43910.1 121 FAKTLTQSDANNGGGFSVPRFCAETIfpeldysSEPPVQ--SVCAKDVHGVEWTFRHIYRGTPRRHLLTTGWSPFVNKKQLTAGDSIVFM--R 209
                       89*********************999****987656666..5************************************************..5 PP

                       SSEE..EEEEE-S CS
                B3  87 rsefelvvkvfrk 99 
                       +++++ +v+++r+
  LOC_Os04g43910.1 210 DEGGNIHVGLRRA 222
                       699*******996 PP
2Auxin_resp118.74.9e-39276359183
        Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrl.sGtvvgvsdldpvrWpnSkWrsLk 83 
                       aa++a+t+++Fev+Y+Prast+eF+v+++ v++a+ v++++GmRfkmafetedss++++ +Gtv+gv+++dpvrWp+S+Wr+L+
  LOC_Os04g43910.1 276 AATRATTGQPFEVLYYPRASTPEFCVRAAAVRTAMAVQWCPGMRFKMAFETEDSSRISWfMGTVAGVQASDPVRWPQSPWRLLQ 359
                       78999*****************************************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.101.3E-36111224IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019369.94E-29114222IPR015300DNA-binding pseudobarrel domain
CDDcd100172.90E-19120221No hitNo description
PROSITE profilePS5086312.435121223IPR003340B3 DNA binding domain
PfamPF023625.5E-22121222IPR003340B3 DNA binding domain
SMARTSM010193.9E-21121223IPR003340B3 DNA binding domain
PfamPF065072.1E-33276359IPR010525Auxin response factor
PROSITE profilePS5174518.88609689IPR000270PB1 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:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0009072anatomyplant ovary
PO:0007042developmental stagewhole plant fruit formation stage
Sequence ? help Back to Top
Protein Sequence    Length: 696 aa     Download sequence    Send to blast
MELAGPTEGD GGGSVDSQLW AACAGSMSSV PPVGAAVYYF PQGHAEQASA AVDLSSARVP  60
PLVPCRVVAV RFMADAESDE VFAKIRLVPL RPGDAVVDVG EAAAAEARRE EENSRPRPTS  120
FAKTLTQSDA NNGGGFSVPR FCAETIFPEL DYSSEPPVQS VCAKDVHGVE WTFRHIYRGT  180
PRRHLLTTGW SPFVNKKQLT AGDSIVFMRD EGGNIHVGLR RAKRGFCSIG GDDESLSSIP  240
GWDQYRGLMR RNATATATGG RTPPKGKVPP ENVLTAATRA TTGQPFEVLY YPRASTPEFC  300
VRAAAVRTAM AVQWCPGMRF KMAFETEDSS RISWFMGTVA GVQASDPVRW PQSPWRLLQV  360
TWDEPELLQN VKRVCPWLVE LVSSMPNLHL PSFSPPRKKP RNPPYAELPL EGQIFTGPVF  420
PPNPMAHDHH HHHGFPFLPF PDSSAQPAGI QGARHAQFAS PFPEFHIGNL QPNLMLYAGI  480
RLPPADRAAP APRPPRIIIS TDLTIGSPGK PDDAACSPSS GGKKIDDTKP RGFLLFGQAI  540
LTEEQIKNGN SDGRPASPNW DAEKAPNTSE GSDSGVTQGS PTKNTTPSWS LPYFGGNNIS  600
RASEYELNPG QCKVFVESET VGRSLDLSAL SSFEELYACL SDMFSIGSDE LRSHLVYRSP  660
AGEVKHAGDE PFCAFVKSAR KLRILTDAGS DNLGD*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-80138037388Auxin response factor 5
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.83740.0callus| flower| leaf| panicle| root
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO329860040.0
Expression AtlasQ7XKK6-
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in roots, culms, leaves and young panicles. {ECO:0000269|PubMed:17408882}.
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).
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
PlantRegMapLOC_Os04g43910.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs04g43910
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAL6629580.0AL662958.3 Oryza sativa genomic DNA, chromosome 4, BAC clone: OSJNBa0019D11, complete sequence.
GenBankAL7316290.0AL731629.2 Oryza sativa genomic DNA, chromosome 4, BAC clone: OSJNBb0061C13, complete sequence.
GenBankAP0149600.0AP014960.1 Oryza sativa Japonica Group DNA, chromosome 4, cultivar: Nipponbare, complete sequence.
GenBankCP0126120.0CP012612.1 Oryza sativa Indica Group cultivar RP Bio-226 chromosome 4 sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015633845.10.0auxin response factor 10
SwissprotQ01I350.0ARFJ_ORYSI; Auxin response factor 10
SwissprotQ7XKK60.0ARFJ_ORYSJ; Auxin response factor 10
TrEMBLB8AS270.0B8AS27_ORYSI; Auxin response factor
STRINGOBART04G18910.10.0(Oryza barthii)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP51637152
Representative plantOGRP5261578
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G28350.10.0auxin response factor 10
Publications ? help Back to Top
  1. Wang D, et al.
    Genome-wide analysis of the auxin response factors (ARF) gene family in rice (Oryza sativa).
    Gene, 2007. 394(1-2): p. 13-24
    [PMID:17408882]