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 KN538815.1_FGP005
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: 350aa    MW: 38422.9 Da    PI: 8.4719
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
KN538815.1_FGP005genomeBGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B377.61.4e-24107208199
                        EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE- CS
                 B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkld 85 
                        f k+lt+sd+++ g +++p+ +ae++         ++ +  t+  +d +g +W++++iyr++++r++lt+GW+ Fv++++L +gD++vF+  
  KN538815.1_FGP005 107 FAKTLTQSDANNGGGFSVPRYCAETIfprldysADPPVQ--TVLAKDVHGVVWKFRHIYRGTPRRHLLTTGWSTFVNQKKLVAGDSIVFM-- 194
                        89****************************996555555..8999*********************************************.. PP

                        SSSEE..EEEEE-S CS
                 B3  86 grsefelvvkvfrk 99 
                        +++++ l+v+++r+
  KN538815.1_FGP005 195 RTENGDLCVGIRRA 208
                        4588999****997 PP
2Auxin_resp114.41.1e-37267350183
         Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrl.sGtvvgvsdldpvrWpnSkWrsLk 83 
                        aa+ a ++++FevvY+Prast+eF+vk+  v++a+++++ +GmRfkmafetedss++++ +Gtv++v+ +dp+rWpnS+Wr+L+
  KN538815.1_FGP005 267 AANLAVSGQPFEVVYYPRASTPEFCVKAGAVRAAMRTQWFAGMRFKMAFETEDSSRISWfMGTVSAVQVADPIRWPNSPWRLLQ 350
                        688999****************************************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.109.2E-3899210IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019363.4E-29103207IPR015300DNA-binding pseudobarrel domain
CDDcd100178.82E-22106207No hitNo description
SMARTSM010193.4E-21107209IPR003340B3 DNA binding domain
PfamPF023627.5E-23107208IPR003340B3 DNA binding domain
PROSITE profilePS5086312.999107209IPR003340B3 DNA binding domain
PfamPF065071.1E-32267350IPR010525Auxin response factor
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
Sequence ? help Back to Top
Protein Sequence    Length: 350 aa     Download sequence    Send to blast
MAAVQVKDFC VEEMITFVDS AAKERERESD KCLDPQLWHA CAGGMVQMPP VSSKVYYFPQ  60
GHAEHAQGHG PVEFPGGRVP ALVLCRVAGV RFMADPDTDE EEKPASFAKT LTQSDANNGG  120
GFSVPRYCAE TIFPRLDYSA DPPVQTVLAK DVHGVVWKFR HIYRGTPRRH LLTTGWSTFV  180
NQKKLVAGDS IVFMRTENGD LCVGIRRAKK GGVGGPEFLP PPTPAAAGNY GGFSMFLRGG  240
DDDGNKMAAA ARGKVRARVR PEEVVEAANL AVSGQPFEVV YYPRASTPEF CVKAGAVRAA  300
MRTQWFAGMR FKMAFETEDS SRISWFMGTV SAVQVADPIR WPNSPWRLLQ
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A9e-691135034367Auxin response factor 5
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
PlantRegMapKN538815.1_FGP005
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAB0712990.0AB071299.1 Oryza sativa OsARF10 mRNA for auxin response factor 10, partial cds.
GenBankAK1003220.0AK100322.1 Oryza sativa Japonica Group cDNA clone:J023079H12, full insert sequence.
GenBankAP0037660.0AP003766.3 Oryza sativa Japonica Group genomic DNA, chromosome 6, PAC clone:P0009H10.
GenBankAP0053950.0AP005395.3 Oryza sativa Japonica Group genomic DNA, chromosome 6, PAC clone:P0623A10.
GenBankAP0149620.0AP014962.1 Oryza sativa Japonica Group DNA, chromosome 6, cultivar: Nipponbare, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015644137.10.0auxin response factor 18
RefseqXP_015644138.10.0auxin response factor 18
SwissprotQ653H70.0ARFR_ORYSJ; Auxin response factor 18
TrEMBLA0A0E0HUN90.0A0A0E0HUN9_ORYNI; Auxin response factor
STRINGONIVA06G28270.10.0(Oryza nivara)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP51637152
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G30080.11e-153auxin response factor 16
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. Huang J,Li Z,Zhao D
    Deregulation of the OsmiR160 Target Gene OsARF18 Causes Growth and Developmental Defects with an Alteration of Auxin Signaling in Rice.
    Sci Rep, 2016. 6: p. 29938
    [PMID:27444058]