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.1NG291600.1.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: 673aa    MW: 74837.3 Da    PI: 6.1579
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.1NG291600.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B373.42.7e-23122222198
                          EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEE CS
                   B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFk 83 
                          f+k+lt sd++++g +++ +++aee+       ++++ +  +l+ +d++g++W +++i+r++++r++lt+GW+ Fv++++L +gD ++F 
  Pavir.1NG291600.1.p 122 FCKTLTASDTSTHGGFSVLRRHAEEClpqldmtQNPPWQ--ELVAKDLHGNEWHFRHIFRGQPRRHLLTTGWSVFVSSKRLVAGDAFIFL 209
                          99**************************99975555545..8************************************************ PP

                          E-SSSEE..EEEEE- CS
                   B3  84 ldgrsefelvvkvfr 98 
                            + +++el+v+v+r
  Pavir.1NG291600.1.p 210 --RGENGELRVGVRR 222
                          ..449999*****97 PP
2Auxin_resp1033.6e-34248333183
           Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdl...dpvrWpnSkWrsLk 83 
                          a+ha+st++ F+v+Y+Pr+s+seFvv+v+k+++a ++k+svGmRfkm+fe+++s+err+sGt++g+  +   +++ W +S WrsLk
  Pavir.1NG291600.1.p 248 ASHAISTGTLFSVFYKPRTSRSEFVVSVNKYLEAKNHKMSVGMRFKMRFEGDESPERRFSGTIIGLGSMpanSTSPWADSDWRSLK 333
                          789*************************************************************988753336789********96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019361.07E-43110251IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.108.5E-41118237IPR015300DNA-binding pseudobarrel domain
CDDcd100172.71E-21120222No hitNo description
SMARTSM010191.6E-21122224IPR003340B3 DNA binding domain
PfamPF023624.5E-21122222IPR003340B3 DNA binding domain
PROSITE profilePS5086311.462122224IPR003340B3 DNA binding domain
PfamPF065071.2E-32248333IPR010525Auxin response factor
PfamPF023094.8E-13515633IPR033389AUX/IAA domain
PROSITE profilePS5174525.274542624IPR000270PB1 domain
SuperFamilySSF542778.5E-12544620No 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: 673 aa     Download sequence    Send to blast
MANAGVAVGS GGISHALFRE LWHACAGPLV TVPRQGELVY YFPQGHMEQL EASTDQQLDQ  60
HLPLFNLPSK ILCKVVNVEL RAETDSDEVY AQIMLQPEAD QSEPTSPAPE LPEPERCNVH  120
SFCKTLTASD TSTHGGFSVL RRHAEECLPQ LDMTQNPPWQ ELVAKDLHGN EWHFRHIFRG  180
QPRRHLLTTG WSVFVSSKRL VAGDAFIFLR GENGELRVGV RRLMRQLNNM PSSVISSHSM  240
HLGVLATASH AISTGTLFSV FYKPRTSRSE FVVSVNKYLE AKNHKMSVGM RFKMRFEGDE  300
SPERRFSGTI IGLGSMPANS TSPWADSDWR SLKVQWDEPS AVVRPDRVSP WELELLDATN  360
TQPPQPPLRS KRARPPASPS IAPELPPVFG FWKSPPEPTH AFSFSGLQRT QELYHSNPNS  420
IFSSSLNVGF NSKNEHSTPT NNHLYWPIRD TRTESYSASI NKLPPERKQE SATAGCRLFG  480
IELSNAVSPV VTVASVGQDQ PPVVSVDVEP DQLSQPSQAN KTDAPAASSE RSPHETESRQ  540
VRSCTKVIMQ GMAVGRAVDL TRLEGYDDLL HKLEEMFDIQ GELSASLKKW KVIYTDDEDD  600
MMLVGDDPWP EFCGMVKRIY IYSYEEAKSL TPKVKLPVIG DTTKPNLDKL SPESDMPQSD  660
SNNSALVAAD KD*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A0.01135813357Auxin response factor 1
4ldw_A0.01135813357Auxin response factor 1
4ldw_B0.01135813357Auxin response factor 1
4ldx_A0.01135813357Auxin response factor 1
4ldx_B0.01135813357Auxin response factor 1
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.59120.0callus| leaf| 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.1NG291600.1.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
GenBankBT0652840.0BT065284.1 Zea mays full-length cDNA clone ZM_BFb0080F20 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025808945.10.0auxin response factor 7-like isoform X1
RefseqXP_025808954.10.0auxin response factor 7-like isoform X1
SwissprotQ6YVY00.0ARFG_ORYSJ; Auxin response factor 7
TrEMBLA0A2S3GQD70.0A0A2S3GQD7_9POAL; Auxin response factor
STRINGPavir.Aa01676.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP108236116
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G59750.40.0auxin response factor 1
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]