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.4KG408000.1.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: 909aa    MW: 100248 Da    PI: 6.2107
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.4KG408000.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B3772.1e-24134235199
                          EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE CS
                   B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkl 84 
                          f+k+lt sd++++g +++p++ ae+        ++++++ +l+ +d++g++W++++i+r++++r++lt+GW+ Fv+a++L +gD+v+F  
  Pavir.4KG408000.1.p 134 FCKTLTASDTSTHGGFSVPRRAAEKVfppldfTQQPPCQ-ELIAKDLHGNEWKFRHIFRGQPKRHLLTTGWSVFVSAKRLVAGDSVLFI- 221
                          99*****************************96666675.9************************************************. PP

                          -SSSEE..EEEEE-S CS
                   B3  85 dgrsefelvvkvfrk 99 
                           ++++ +l+++++r+
  Pavir.4KG408000.1.p 222 -WNDNNQLLLGIRRA 235
                          .7777788***9997 PP
2Auxin_resp120.11.7e-39260343183
           Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                          aahaast+s F+++YnPras+seFv++++k++ka++ +++svGmRf+m fete+ss rr++Gt++g+sdld+vrWpnS+Wrs+k
  Pavir.4KG408000.1.p 260 AAHAASTNSRFTIFYNPRASPSEFVIPLAKYVKAVYhTRISVGMRFRMLFETEESSVRRYMGTITGISDLDSVRWPNSHWRSVK 343
                          79*********************************9789******************************************985 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019363.4E-48119263IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.102.0E-43125249IPR015300DNA-binding pseudobarrel domain
CDDcd100177.31E-23133234No hitNo description
PfamPF023626.5E-23134235IPR003340B3 DNA binding domain
SMARTSM010192.1E-25134236IPR003340B3 DNA binding domain
PROSITE profilePS5086313.014134236IPR003340B3 DNA binding domain
PfamPF065071.3E-34260343IPR010525Auxin response factor
SuperFamilySSF542771.37E-7767852No hitNo description
PfamPF023091.5E-8773862IPR033389AUX/IAA domain
PROSITE profilePS5174522.918776860IPR000270PB1 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: 909 aa     Download sequence    Send to blast
MRLSSSSGSV IPAQAASPEA VEEHKCLNSE LWHACAGPLV SLPAVGSRVV YFPQGHSEQV  60
AASTNKEMES QIPNYPNLPA QLICQLHNVT MHADAETDEV YAQMTLQPLN PQELKDPYLP  120
AELGSANKQP TNYFCKTLTA SDTSTHGGFS VPRRAAEKVF PPLDFTQQPP CQELIAKDLH  180
GNEWKFRHIF RGQPKRHLLT TGWSVFVSAK RLVAGDSVLF IWNDNNQLLL GIRRASRPQT  240
VMPSSVLSSD SMHIGLLAAA AHAASTNSRF TIFYNPRASP SEFVIPLAKY VKAVYHTRIS  300
VGMRFRMLFE TEESSVRRYM GTITGISDLD SVRWPNSHWR SVKVGWDEST AGERQPRVSL  360
WEIEPLTTFP MYPSPFPLRL KRPWPTGLPS LHGGKDDDLT NSLMWLRDTA NPGFQSLNFG  420
GLGVNPWMQP RLDASLLGLQ PDMYQAMATA AFQDPTKQVS STMLQFQQPQ NISGRAAPLL  480
SSQILQQVQP QFQQQPYLQN IPESTIHGQG QSELLKQQIQ RTQSFNEQKP QLQPQQQQQE  540
SQCLQVPQHQ QMQQQNNMAN YQSVSNALSA FSQLSSAPQS SPAVLQTILP FSQAQSFAET  600
TISSLSPSNA ATMQNTLRPF SSEAASNLSM PRPTAVSVAD PWSSKRVAVE SLLPSRTQVS  660
SQMEQLDSTP PNIPQSSALA PLPGRGCLDQ DVNSDPQNHL LFGVSIDSQS LLMQGGIPGL  720
QNGNDSTAIP YSTSNFLSPS QNDFPLDHTL NSSGCLDDVG YVPCSDNSDQ VNRPPATFVK  780
VYKSGTYGRS LDITRFSSYH ELRRELGRLF GLEGQLEDPM RSGWQLVFVD REEDVLLVGD  840
DPWQEFVSTV SCIKILSPQE VQQMGKQGLE LLSSAPARRL GSSCDDYVSR QESRSLSTGI  900
ASVGSVEF*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-1602736451388Auxin response factor 5
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.9020.0leaf| root| stem
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
PlantRegMapPavir.4KG408000.1.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
GenBankBT0883180.0BT088318.1 Zea mays full-length cDNA clone ZM_BFc0133F15 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025811094.10.0auxin response factor 17
RefseqXP_025811095.10.0auxin response factor 17
SwissprotQ653U30.0ARFQ_ORYSJ; Auxin response factor 17
TrEMBLA0A2S3HH250.0A0A2S3HH25_9POAL; Auxin response factor
TrEMBLA0A2T7DV860.0A0A2T7DV86_9POAL; Auxin response factor
STRINGPavir.Da00065.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP20123685
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G30330.20.0auxin response factor 6
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]