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.7NG427500.1.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: 943aa    MW: 104171 Da    PI: 6.1734
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.7NG427500.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B370.52.2e-22143244199
                          EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE CS
                   B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkl 84 
                          f+k lt sd++++g +++p++ a++       ++++++ ++l+++d++   W++++iyr++++r++lt+GW+ Fv +++Lk+gD+v+F  
  Pavir.7NG427500.1.p 143 FCKNLTASDTSTHGGFSVPRRAADKLfpqldySMQPPN-QELIVRDLHDSLWTFRHIYRGQPKRHLLTTGWSLFVGSKRLKAGDSVLFI- 230
                          89*********************999*****9555555.49************************************************. PP

                          -SSSEE..EEEEE-S CS
                   B3  85 dgrsefelvvkvfrk 99 
                           ++++ +l+v+v+r+
  Pavir.7NG427500.1.p 231 -RDEKSQLLVGVRRA 244
                          .4577778*****97 PP
2Auxin_resp113.81.6e-37269351183
           Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                          aahaas++  F+++YnPr+s+s Fv+++ +++ka++++ svGmRf m+fete+ss+rr++Gt+vg+sd+dp+rWpnSkWr+L+
  Pavir.7NG427500.1.p 269 AAHAASSGGSFTIYYNPRTSPSPFVIPLTRYNKATYMQPSVGMRFAMMFETEESSKRRCTGTIVGISDYDPMRWPNSKWRNLQ 351
                          79*******************************************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019369.16E-44133272IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.102.8E-39136257IPR015300DNA-binding pseudobarrel domain
CDDcd100178.67E-20142243No hitNo description
SMARTSM010192.6E-21143245IPR003340B3 DNA binding domain
PROSITE profilePS5086312.492143245IPR003340B3 DNA binding domain
PfamPF023625.2E-20143244IPR003340B3 DNA binding domain
PfamPF065073.9E-33269351IPR010525Auxin response factor
PfamPF023091.7E-9838926IPR033389AUX/IAA domain
PROSITE profilePS5174524.119839923IPR000270PB1 domain
SuperFamilySSF542773.79E-8857918No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009733Biological Processresponse to auxin
GO:0009908Biological Processflower development
GO:0009942Biological Processlongitudinal axis specification
GO:0010305Biological Processleaf vascular tissue pattern formation
GO:0048364Biological Processroot development
GO:0048507Biological Processmeristem development
GO:0005634Cellular Componentnucleus
GO:0016020Cellular Componentmembrane
GO:0042802Molecular Functionidentical protein binding
GO:0044212Molecular Functiontranscription regulatory region DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 943 aa     Download sequence    Send to blast
MASSQEKATS GVLRNAAALL DEMQLMGEAQ GAKKVINSEL WHACAGPLVC LPQRGSLVYY  60
FPQGHSEQVA ATTKKVPNSR IPNYPSLPSQ LLCQVHNITL HADKETDEIY AQMTLQPVHS  120
ETDVFPIPTL GAYTKSKHPT EYFCKNLTAS DTSTHGGFSV PRRAADKLFP QLDYSMQPPN  180
QELIVRDLHD SLWTFRHIYR GQPKRHLLTT GWSLFVGSKR LKAGDSVLFI RDEKSQLLVG  240
VRRATRQQPP LSSSVLSTDS MHIGVLAAAA HAASSGGSFT IYYNPRTSPS PFVIPLTRYN  300
KATYMQPSVG MRFAMMFETE ESSKRRCTGT IVGISDYDPM RWPNSKWRNL QVEWDEHGYG  360
ERPERVNLWD IETPENSLVF SSPLNSKRQC LPSYGVPGLQ IDNLSSIPRA QANPFGNLQH  420
MPGIGSELAL MLLNQPGQNL GSPLACQQSS FSSIIQNVKH GYIPPLTFGS SNGSIKQENM  480
ISNEAQQQLN APNIEKDDQV SCEVQPSIDS ISEQELNVKA RGPRNTDSYS SQSISDQNSK  540
GEPRTKTRRS KKGLSHKSIS DKSELSSVPS QIYDNQRHCS EPKLVDCEAE QVNCEDSSGA  600
LTRGGFAGAQ VQHVEQHELL SPAKLDSSKS PDGGKSVSSF PNQGCSPQFF EGLDWVIQPS  660
YYQDSNGIHS VSGSENIFNQ STDITSTINA DTMEAFQTSC LSECFPNSVQ EFISSPDLNS  720
LTFMSHDMQH LDGQHEVNNL PSTSNSYVQM TYSEESGNQS ASLSGLHMEA IHINSSCSEP  780
LATGSFDTGM FSKLPDLRES QVLPLHEIHN SSMGKPSCSM EAAEYSIDRS AKPMKPPVRT  840
FTKVQKLGSV GRSIDVTRYR DYHELRSAIA CMFGLQGKLE HPGSSDWKLV YVDYENDVLL  900
VGDDPWEEFI NCVRCIRILS PSEVQQMSEN GVHVLNDCIQ IA*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A0.01737431390Auxin response factor 5
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.260570.0callus
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).
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00153DAPTransfer from AT1G19850Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.7NG427500.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025824429.10.0auxin response factor 11
SwissprotQ01K260.0ARFK_ORYSI; Auxin response factor 11
SwissprotQ8S9830.0ARFK_ORYSJ; Auxin response factor 11
TrEMBLA0A2S3IBD30.0A0A2S3IBD3_9POAL; Auxin response factor
STRINGPavir.Gb00117.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP86733241
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G19850.10.0ARF family protein
Publications ? help Back to Top
  1. Shen C, et al.
    Functional analysis of the structural domain of ARF proteins in rice (Oryza sativa L.).
    J. Exp. Bot., 2010. 61(14): p. 3971-81
    [PMID:20693412]
  2. Indoliya Y, et al.
    Decoding regulatory landscape of somatic embryogenesis reveals differential regulatory networks between japonica and indica rice subspecies.
    Sci Rep, 2016. 6: p. 23050
    [PMID:26973288]