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.4NG315300.2.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: 1077aa    MW: 119900 Da    PI: 6.7392
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.4NG315300.2.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B372.36e-2371172199
                          EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEE CS
                   B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFk 83 
                          f+k+lt sd++++g +++p++ ae++       + +++  ++++ +d++  +W++++iyr++++r++lt+GW+ Fv+ ++L +gD+v+F 
  Pavir.4NG315300.2.p  71 FCKTLTASDTSTHGGFSVPRRAAEKIfppldfsM-QPPA-QEIQARDLHDSTWTFRHIYRGQPKRHLLTTGWSLFVSGKRLFAGDSVIFV 158
                          99*****************************954.4444.48************************************************ PP

                          E-SSSEE..EEEEE-S CS
                   B3  84 ldgrsefelvvkvfrk 99 
                            ++++++l+++++r+
  Pavir.4NG315300.2.p 159 --RDEKQQLLLGIRRA 172
                          ..5688889****997 PP
2Auxin_resp118.65.2e-39197280183
           Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                          aahaa+++s+F+++YnPras++eFvv+++k++kal+ +++s+GmRf+m+fete+  +rr++Gt++g+sdldpvrW+nS+Wr+L+
  Pavir.4NG315300.2.p 197 AAHAAANNSPFTIFYNPRASPTEFVVPFAKYQKALYrNQISLGMRFRMMFETEELGTRRYMGTITGISDLDPVRWKNSQWRNLQ 280
                          79*********************************989********************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019363.53E-4360200IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.101.4E-4163186IPR015300DNA-binding pseudobarrel domain
CDDcd100173.38E-1970162No hitNo description
PfamPF023627.2E-2171172IPR003340B3 DNA binding domain
SMARTSM010191.2E-2271173IPR003340B3 DNA binding domain
PROSITE profilePS5086312.02671173IPR003340B3 DNA binding domain
PfamPF065074.7E-34197280IPR010525Auxin response factor
PfamPF023095.2E-109411028IPR033389AUX/IAA domain
PROSITE profilePS5174527.9759431027IPR000270PB1 domain
SuperFamilySSF542771.67E-79551022No hitNo description
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: 1077 aa     Download sequence    Send to blast
MQKDVDGHVP SYPNLPSKLI CLLHNVTLHA DPETDEVYAQ MTLQPVTSYG KEALQLSELA  60
LKQPRPQTEF FCKTLTASDT STHGGFSVPR RAAEKIFPPL DFSMQPPAQE IQARDLHDST  120
WTFRHIYRGQ PKRHLLTTGW SLFVSGKRLF AGDSVIFVRD EKQQLLLGIR RANRQPTNIS  180
SSVLSSDSMH IGILAAAAHA AANNSPFTIF YNPRASPTEF VVPFAKYQKA LYRNQISLGM  240
RFRMMFETEE LGTRRYMGTI TGISDLDPVR WKNSQWRNLQ VGWDESAAGE RRNRVSIWEI  300
EPVAAPFFIC PPPFFGSKRP RQLDDESSEM ENLLKRAMPW LGEEICIKDP QTQNTIMPGL  360
SLVQWMNMNM QQNSSFANTA MQSEYLRSLS NPSMQNLGAA DLSRQLCLQN QILQQNSIQF  420
SSPKLPQQMQ PVNELSKATL PLNQLGVSTK PQEQTQDPSN LQRQQQSMNQ LLPLSQSQTN  480
LVQAQVLVQN QMQQQQPPST TQNQQSSTSQ LQLLPHQQQH QQQKLLHQQQ QLLLQQQQFQ  540
QQQQNQQLNK MAAQVPNLAA QQLQLSDQQL QLQLLQKLQQ QQQSLLSQPA VTLAQLPLIQ  600
EQQKLILDMQ QQLSNSQSLS QQQTMPQQST KVPSQTPPPP PPPPPPPHMQ QEPQQKVPQK  660
HVGFPDTSHA AIPPATSVNA ISVAGSPLMA NGATHSVLTE EIPSCSTSPS TANGNHLVQP  720
ILGRNQQCGM INNEKVPQST APMSIPSSLD AVTAAPRATK ELPKLNSNVK QSVTASKLPN  780
PGPVPQNFVN SAPPTDYLET ASSATSVWLS QTDGLLHQGF PMSNFNQQQL FKDVPPETDI  840
QGADPSNNTL FGINSDGHLG FPMGADGFLS NGIDASKYQN HISTDIDGNY RIPKDGQQEI  900
SSSMVSQSFG ASDMAFNSID SAMNDGGFLN RTSWPPAPLK RMRTFTKVYK RGAVGRSIDI  960
SQYSGYDELK HALARMFSIE GQLEERQRIG WKLVYKDHED DILLLGDDPW EEFVNCVRCI  1020
RILSPQEVQQ MSLDGDLGNN ILPNQACSSS DGGNVWRARC DQNSGNPSNG SYDQFE*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-141930196388Auxin response factor 5
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.7910.0callus| leaf| 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.4NG315300.2.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025810781.10.0auxin response factor 19-like isoform X1
SwissprotQ0D9R70.0ARFS_ORYSJ; Auxin response factor 19
TrEMBLA0A2T7DUH40.0A0A2T7DUH4_9POAL; Auxin response factor
STRINGPavir.Db00232.1.p0.0(Panicum virgatum)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G19220.11e-179auxin response factor 19
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]
  2. Zhang S, et al.
    The auxin response factor, OsARF19, controls rice leaf angles through positively regulating OsGH3-5 and OsBRI1.
    Plant Cell Environ., 2015. 38(4): p. 638-54
    [PMID:24995795]