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 Araha.3284s0025.1.p
Organism
Arabidopsis halleri
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
Family ARF
Protein Properties Length: 571aa    MW: 63642.4 Da    PI: 8.0222
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Araha.3284s0025.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B373.52.6e-2394194198
                          EEEE-..-HHHHTT-EE--HHH.HTT.....---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE- CS
                   B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.....ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkld 85 
                          f+k+lt sd++++g +++ +k+a+e+     + +++ +++l+ +d++g +W++k+i+r++++r++lt+GW+ Fv +++L +gD +vF   
  Araha.3284s0025.1.p  94 FVKILTASDTSTHGGFSVLRKHATEClpsldMTQPTPTQELVARDLHGYEWRFKHIFRGQPRRHLLTTGWSTFVTSKRLVAGDAFVFL-- 181
                          89****************************9666677789************************************************.. PP

                          SSSEE..EEEEE- CS
                   B3  86 grsefelvvkvfr 98 
                          + +++ l+v+v+r
  Araha.3284s0025.1.p 182 RGETGDLRVGVRR 194
                          3489999***998 PP
2Auxin_resp97.61.7e-32220299183
           Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                          a+ha++t+++F v+Y+Pr   s+F+++v+k++ a+k+ +s+GmRf+m+fe+e+s+er ++Gt++g  dl++ +Wp SkWrsL+
  Araha.3284s0025.1.p 220 ASHAVTTTTIFVVFYKPRI--SQFIISVNKYMVAMKNGFSLGMRFRMRFEGEESPERIFTGTIIGSGDLSS-QWPASKWRSLQ 299
                          689***************8..9**********************************************777.*********97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019365.23E-3979223IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.104.3E-3788209IPR015300DNA-binding pseudobarrel domain
CDDcd100174.99E-2093194No hitNo description
PfamPF023622.2E-2194194IPR003340B3 DNA binding domain
SMARTSM010192.3E-2194196IPR003340B3 DNA binding domain
PROSITE profilePS5086312.12594196IPR003340B3 DNA binding domain
PfamPF065071.4E-29220299IPR010525Auxin response factor
PfamPF023094.4E-9445495IPR033389AUX/IAA domain
SuperFamilySSF542773.24E-15454535No hitNo description
Gene3DG3DSA:3.10.20.2404.7E-4458533No hitNo description
PROSITE profilePS5174527.848459551IPR000270PB1 domain
PfamPF023091.1E-6505546IPR033389AUX/IAA 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:0009506Cellular Componentplasmodesma
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 571 aa     Download sequence    Send to blast
MANVDTHFRT SGSNDDQLYS ELWKACAGVV DQEIPVFNLP PKILCRVLSV LLKAEHETDE  60
VYAQITLQPE EDQSEPTSLD PPLVEPAKPT VDSFVKILTA SDTSTHGGFS VLRKHATECL  120
PSLDMTQPTP TQELVARDLH GYEWRFKHIF RGQPRRHLLT TGWSTFVTSK RLVAGDAFVF  180
LRGETGDLRV GVRRLAKQQS TMPVSVISSQ SMRLGVLATA SHAVTTTTIF VVFYKPRISQ  240
FIISVNKYMV AMKNGFSLGM RFRMRFEGEE SPERIFTGTI IGSGDLSSQW PASKWRSLQI  300
QWDEPSSIQR PNKVSPWEIE PFSPSALTPA PTQQQSKSKR SRPIGSSISE ITGSPVASNF  360
LSSFPQSHES NPSVKLLFHD TATERNSNKS VFSSGLQCKK TEAPVTSCCR LFGFDLTSKP  420
ASAPIPPDKQ LISVDSTPKC QDPNSSNSPK EQKQQTSTRS RIKVQMQGTA VGRAVDLTLL  480
RSYDELIKEL EKMFEIEGEL SPKDKWAIVF TDDEGDMMLV GDDPWNEFCK MAKKLFIYPS  540
DEVKKLSSKS LLRDEGTIVN LKSDQRTIHV *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-1431232313356Auxin response factor 1
4ldw_A1e-1431232313356Auxin response factor 1
4ldw_B1e-1431232313356Auxin response factor 1
4ldx_A1e-1431232313356Auxin response factor 1
4ldx_B1e-1431232313356Auxin 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). Could act as transcriptional activator or repressor. Formation of heterodimers with Aux/IAA proteins may alter their ability to modulate early auxin response genes expression. {ECO:0000269|PubMed:12036261}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapAraha.3284s0025.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK2299240.0AK229924.1 Arabidopsis thaliana mRNA for ARF1 family auxin responsive transcription factor like protein, complete cds, clone: RAFL22-28-H22.
GenBankAY6697910.0AY669791.1 Arabidopsis thaliana clone C105346 ARF11 (At2g46530) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_020882703.10.0auxin response factor 11
SwissprotQ9ZPY60.0ARFK_ARATH; Auxin response factor 11
TrEMBLD7LEK50.0D7LEK5_ARALL; Auxin response factor
STRINGscaffold_403621.10.0(Arabidopsis lyrata)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM74351841
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G46530.10.0auxin response factor 11
Publications ? help Back to Top
  1. Duarte JM, et al.
    Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis.
    Mol. Biol. Evol., 2006. 23(2): p. 469-78
    [PMID:16280546]
  2. Wójcikowska B,Gaj MD
    Expression profiling of AUXIN RESPONSE FACTOR genes during somatic embryogenesis induction in Arabidopsis.
    Plant Cell Rep., 2017. 36(6): p. 843-858
    [PMID:28255787]