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 Lj1g3v4579590.1
Organism
Lotus japonicus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Loteae; Lotus
Family ARF
Protein Properties Length: 714aa    MW: 78509.9 Da    PI: 7.3163
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Lj1g3v4579590.1genomeKazusaView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B3711.5e-22140241199
                      EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SS CS
               B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgr 87 
                      f k+lt+sd+++ g +++p+ +ae++         ++ +   +  +d +g+ W++++iyr++++r++lt+GW+ Fv+ ++L +gD++vF   + 
  Lj1g3v4579590.1 140 FAKTLTQSDANNGGGFSVPRYCAETIfppldysADPPVQ--NILAKDVHGEIWKFRHIYRGTPRRHLLTTGWSTFVNHKKLIAGDSIVFL--RA 229
                      89*****************************97656666..69999********************************************..44 PP

                      SEE..EEEEE-S CS
               B3  88 sefelvvkvfrk 99 
                      +++ l+v+++r+
  Lj1g3v4579590.1 230 ENGDLCVGIRRA 241
                      88999****997 PP
2Auxin_resp110.41.8e-36310392183
       Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrl.sGtvvgvsdldpvrWpnSkWrsLk 83 
                      aa+ a+++++FevvY+Prast+eF+vk++ v++a++v++++GmRfkm fetedss++++ +Gtv++v+ +dp rW++S+Wr+L+
  Lj1g3v4579590.1 310 AATLAANMQPFEVVYYPRASTPEFCVKASLVRAAMQVRWCPGMRFKMPFETEDSSRISWfMGTVSSVQVADP-RWSDSPWRLLQ 392
                      68899*******************************************************************.*********97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.106.3E-37134244IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019362.49E-29135243IPR015300DNA-binding pseudobarrel domain
CDDcd100171.30E-21138240No hitNo description
SMARTSM010194.8E-21140242IPR003340B3 DNA binding domain
PfamPF023621.6E-20140241IPR003340B3 DNA binding domain
PROSITE profilePS5086312.703140242IPR003340B3 DNA binding domain
PfamPF065073.1E-30310392IPR010525Auxin response factor
PROSITE profilePS5174517.843628711IPR000270PB1 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: 714 aa     Download sequence    Send to blast
MISGICSEKK LLYLAIIEMM VSTESKEKLK EVVERCLDPQ LWHACAGGMV QMPQVNAKVF  60
YFPQGHAEHA CEPVDFRSYN KLPSCIQCRV TGIKYMADPE TDEVCARIRL VPLHSNEVDF  120
DDDGVGGGVN ETKDNKPPSF AKTLTQSDAN NGGGFSVPRY CAETIFPPLD YSADPPVQNI  180
LAKDVHGEIW KFRHIYRGTP RRHLLTTGWS TFVNHKKLIA GDSIVFLRAE NGDLCVGIRR  240
AKRGGSGGGP DPSSGWNSAG GTGFHPLSYA GFADSNQLLR NGHGNGNGLS PTSASLMCRG  300
KVRAQAVIEA ATLAANMQPF EVVYYPRAST PEFCVKASLV RAAMQVRWCP GMRFKMPFET  360
EDSSRISWFM GTVSSVQVAD PRWSDSPWRL LQVAWDEPDL LQNVKRVSPW LVEIVSNMPN  420
IHLSPFTPPR KKMRLPQHPD FPLDGQISVP TFPGNHLLGP GTSFDRLYEN SPAGMQGARH  480
AHYGISLSDL HLSKLQSGLF SSNFTQFDHI HHAAAATPMR VPNINPTLQK PSTSENISYL  540
LSMTTTTNST QSKKPDDDDV KPPRLVLFGQ TILTEQQISL SSSADNTVSP VLTGNNSSSD  600
GNADKKTNFS NGFGSALDRQ DSLPSLETGH CKVFMESEDV GRTMNLTLLN SYDELYKKLA  660
DMFGIQKSGV LSHVLYCDKT GAVKHIGDEA FSDFTKTARR LTILMDSSSD NGRV
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A5e-773741351388Auxin response factor 5
Search in ModeBase
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).
Cis-element ? help Back to Top
SourceLink
PlantRegMapLj1g3v4579590.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAP0102940.0AP010294.1 Lotus japonicus genomic DNA, chromosome 1, clone: LjT45O08, TM2015, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_027351695.10.0auxin response factor 18-like isoform X1
RefseqXP_027351696.10.0auxin response factor 18-like isoform X1
SwissprotQ653H70.0ARFR_ORYSJ; Auxin response factor 18
TrEMBLA0A2P5D7P20.0A0A2P5D7P2_PARAD; Auxin response factor
STRINGEOY078380.0(Theobroma cacao)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF63734138
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. 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]