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.1KG067400.1.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: 905aa    MW: 99469.7 Da    PI: 5.6884
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.1KG067400.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B377.11.9e-24134235199
                          EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEE CS
                   B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFk 83 
                          f+k+lt sd++++g +++p++ ae+        +++++  ++l+ +d++g++W++++i+r++++r++lt+GW+ Fv+a++L +gD+v+F 
  Pavir.1KG067400.1.p 134 FCKTLTASDTSTHGGFSVPRRAAEKVfppldfnQQPPA--QELIAKDLHGNEWKFRHIFRGQPKRHLLTTGWSVFVSAKRLVAGDSVLFI 221
                          99*****************************8444443..48************************************************ PP

                          E-SSSEE..EEEEE-S CS
                   B3  84 ldgrsefelvvkvfrk 99 
                            ++++ +l+++++r+
  Pavir.1KG067400.1.p 222 --WNDNNQLLLGIRRA 235
                          ..7777778***9997 PP
2Auxin_resp119.23.3e-39260343183
           Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                          aahaast+s F+++YnPras+ eFv++++k++ka++ +++svGmRf+m fete+ss rr++Gt++g+sdldpvrWpnS+Wrs+k
  Pavir.1KG067400.1.p 260 AAHAASTNSRFTIFYNPRASPCEFVIPLSKYMKAVYhTRISVGMRFRMLFETEESSVRRYMGTITGISDLDPVRWPNSHWRSVK 343
                          79*********************************9789******************************************985 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019361.57E-48119263IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.102.5E-43125249IPR015300DNA-binding pseudobarrel domain
CDDcd100171.78E-22133234No hitNo description
PROSITE profilePS5086313.352134236IPR003340B3 DNA binding domain
SMARTSM010191.6E-25134236IPR003340B3 DNA binding domain
PfamPF023626.7E-23134235IPR003340B3 DNA binding domain
PfamPF065074.8E-34260343IPR010525Auxin response factor
SuperFamilySSF542776.87E-9762848No hitNo description
PfamPF023097.6E-9763857IPR033389AUX/IAA domain
PROSITE profilePS5174524.701772856IPR000270PB1 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: 905 aa     Download sequence    Send to blast
MKLSPSAGGG LQDQPASPEE AEENKCLNSE LWHACAGPLV SLPAVGSRVV YFPQGHGEQV  60
AASTNKEMES QIPNYPSLPP QLICQLHNVT MHADAETDVV YAQMTLQPLS PQELKDPFLP  120
AELGSASKQP TNYFCKTLTA SDTSTHGGFS VPRRAAEKVF PPLDFNQQPP AQELIAKDLH  180
GNEWKFRHIF RGQPKRHLLT TGWSVFVSAK RLVAGDSVLF IWNDNNQLLL GIRRANRPQT  240
VMPSSVLSSD SMHIGLLAAA AHAASTNSRF TIFYNPRASP CEFVIPLSKY MKAVYHTRIS  300
VGMRFRMLFE TEESSVRRYM GTITGISDLD PVRWPNSHWR SVKVGWDEST AGEKQPRVSL  360
WEIEPLTTFP MYPSPFALGL KRPWPTGLPS LYGGRDDGLT SSLMWLRDGA NPSFQSLNFG  420
GLGTSPWMQP RMDNSLLCLQ SDMYQTIAAA AALQGTTKQI PPSVMQFQQP QNIVGRSALL  480
SNQIMQQVQP QFQQIYSQNI NDNTVQGHTQ AEYLQQQLQR SQSFNEQKPQ LHPQQQHQES  540
QQQQECVQTP QNQQLHCLPN ELSAFSQLSS VNQSPSSTLP TVPAFSNQNF PDTNVSSLTP  600
SGGSSMQGML GQLPSEAASN LPCVARTTPL PISDPWSSKR VAVESVNPSR PHAVSTQIEQ  660
LDMTPCNLPQ NSALAPLPGR GCLMDQDGSS DPQNHLLFGV NIDSQSLLMQ GGIPGHQNDN  720
VSSTIPYSTS NFLSPSQDDF PLNQPLPSAG CLDESGYVQC AENSEQANQQ FSTFVKVYKS  780
GTVGRLLDIT RFSSYDELRS EVGRLFGLEG QLEDPLRSGW QLVFVDGEGD VLLVGDDPWH  840
EFVNSVSCIK ILSPEEVQQM GKQGIQLLSS APARRLSNGW DSYVSKQESR SLSTGMAPVG  900
SVEF*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-1592736451388Auxin response factor 5
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.127100.0callus| 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).
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.1KG067400.1.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
GenBankKJ7277400.0KJ727740.1 Zea mays clone pUT5681 ARF transcription factor (ARF16) mRNA, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025823935.10.0auxin response factor 6-like isoform X1
SwissprotA2X1A10.0ARFF_ORYSI; Auxin response factor 6
SwissprotQ6H6V40.0ARFF_ORYSJ; Auxin response factor 6
TrEMBLA0A2S3GLJ50.0A0A2S3GLJ5_9POAL; Auxin response factor
STRINGPavir.Ab00451.1.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]