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 Pavir.J625600.1.p
Organism
Panicum virgatum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Panicinae; Panicum
Family ARF
Protein Properties Length: 392aa    MW: 44291.1 Da    PI: 8.972
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.J625600.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B360.72.5e-1960156198
                        EEEE-..-HHHHTT-E.E--HHH.HTT..---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSE CS
                 B3   1 ffkvltpsdvlksgrl.vlpkkfaeeh..ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrse 89 
                        f+k+lt sd++k+  + ++ +++a+e+   + +++  +l+ +d++g +W++++i+r++++r++l++ W+ Fv+a++L +gD ++F   + ++
  Pavir.J625600.1.p  60 FCKTLTASDTSKHVSFsSVLRRHADEClpPLLPTQ--ELVAKDLHGVEWRFQHIFRGQPRRHLLQRDWSVFVSAKRLVAGDAFIFL--RGEN 147
                        99***********5554999*******98555555..7************************************************..4499 PP

                        E..EEEEE- CS
                 B3  90 felvvkvfr 98 
                        +el+v+v+ 
  Pavir.J625600.1.p 148 GELRVGVRH 156
                        999***985 PP
2Auxin_resp49.61.7e-172032582883
         Auxin_resp  28 vekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                        ++++++ l++++s+GmR  m+f++ +++e+r++Gt+v vsd+dp+ Wp+SkW sLk
  Pavir.J625600.1.p 203 CARFMELLDRHYSIGMRCEMRFDGGEAPEQRFTGTIVEVSDADPTAWPESKWPSLK 258
                        678999999*******************************************9986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.101.7E-3156166IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.28E-2857184IPR015300DNA-binding pseudobarrel domain
CDDcd100173.82E-1858155No hitNo description
SMARTSM010195.4E-1760158IPR003340B3 DNA binding domain
PfamPF023627.0E-1760156IPR003340B3 DNA binding domain
PROSITE profilePS508639.75695158IPR003340B3 DNA binding domain
PfamPF065072.1E-14202258IPR010525Auxin 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: 392 aa     Download sequence    Send to blast
MYTEMWNLCA GPLVTLPRVG DKVYYLPQGH IKQRPEDNGY SEEIPSAPPA APARLRVHSF  60
CKTLTASDTS KHVSFSSVLR RHADECLPPL LPTQELVAKD LHGVEWRFQH IFRGQPRRHL  120
LQRDWSVFVS AKRLVAGDAF IFLRGENGEL RVGVRHAMRQ QAVPSSLISS HSMHIGVLAT  180
AWHAVNTRAM FRQVQLRLWS RPCARFMELL DRHYSIGMRC EMRFDGGEAP EQRFTGTIVE  240
VSDADPTAWP ESKWPSLKAL YVSPEWVSPW QIELAVSPPP INPLPVPRPK TLRPNALASF  300
PGLLAPSEED LSLSLLIDVV VVYLTNSCFF YLILAITKVT SETQQNTLQR SLQGIPLLRS  360
VDFTKFKGYQ ELISELNKMF EFNGELKGPN K*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A2e-97427322353Auxin response factor 1
4ldw_A2e-97427322353Auxin response factor 1
4ldw_B2e-97427322353Auxin response factor 1
4ldx_A3e-97427322353Auxin response factor 1
4ldx_B3e-97427322353Auxin 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
PlantRegMapPavir.J625600.1.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
GenBankBT0660821e-86BT066082.1 Zea mays full-length cDNA clone ZM_BFb0285O01 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_001307052.11e-144auxin response factor
SwissprotA2ZET61e-125ARFW_ORYSI; Auxin response factor 23
TrEMBLA0A1D6PTP11e-150A0A1D6PTP1_MAIZE; Auxin response factor
TrEMBLA0A3L6F0F01e-150A0A3L6F0F0_MAIZE; Auxin response factor
STRINGPavir.J22605.1.p0.0(Panicum virgatum)
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
AT5G62000.31e-103auxin response factor 2