PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Pavir.5NG501200.1.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: 683aa    MW: 74117.8 Da    PI: 7.0883
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.5NG501200.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B378.38.3e-25128229199
                          EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEE CS
                   B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFk 83 
                          f+k+lt sd++++g +++p++ ae++       ++ +  s++l+ +d++g +W++++iyr++++r++lt+GW++Fv+ ++L +gD v+F 
  Pavir.5NG501200.1.p 128 FCKTLTASDTSTHGGFSVPRRAAEDCfppldynQLRP--SQELVAKDLHGAKWKFRHIYRGQPRRHLLTTGWSSFVNKKKLVSGDAVLFL 215
                          99****************************9876665..459************************************************ PP

                          E-SSSEE..EEEEE-S CS
                   B3  84 ldgrsefelvvkvfrk 99 
                            + +++el+++v+r+
  Pavir.5NG501200.1.p 216 --RGDDGELRLGVRRA 229
                          ..3489999***9996 PP
2Auxin_resp92.56.9e-31256334382
           Auxin_resp   3 haastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsL 82 
                          +++++ksvF++ YnPr+++se++++++k++k+l+++v++G R+ ++ ++ed+serr sG+vvg s++dp++Wp+SkWrsL
  Pavir.5NG501200.1.p 256 DSLKHKSVFHISYNPRVAASEYIIPYRKFLKSLNHPVCIGARINFQCQNEDVSERR-SGMVVGNSEVDPMKWPGSKWRSL 334
                          67899***************************************************.9********************99 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019361.7E-45113267IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.103.4E-39123231IPR015300DNA-binding pseudobarrel domain
CDDcd100171.00E-22126228No hitNo description
PROSITE profilePS5086313.479128230IPR003340B3 DNA binding domain
PfamPF023629.6E-23128229IPR003340B3 DNA binding domain
SMARTSM010192.2E-24128230IPR003340B3 DNA binding domain
PfamPF065072.7E-25257334IPR010525Auxin response factor
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
Sequence ? help Back to Top
Protein Sequence    Length: 683 aa     Download sequence    Send to blast
MGIDLNMVDG EGEERRPPPA VCLDLWHACA GPVVALPRRG SLVVYLPQGH LAAAGGGDVA  60
ADLPPHVVCR VADIELCADA ATDEVYARLA LVAEGEAFGR NVRVGGVEGD EDMEDFDAER  120
KSRMLHMFCK TLTASDTSTH GGFSVPRRAA EDCFPPLDYN QLRPSQELVA KDLHGAKWKF  180
RHIYRGQPRR HLLTTGWSSF VNKKKLVSGD AVLFLRGDDG ELRLGVRRAV QLKNEALFEE  240
FSSDSAKRHT LSAVYDSLKH KSVFHISYNP RVAASEYIIP YRKFLKSLNH PVCIGARINF  300
QCQNEDVSER RSGMVVGNSE VDPMKWPGSK WRSLLVRWED GSECNGQDRV SPWEIDIVGG  360
SVSAAHSLSA SSSKRTKLCP PGNLDVPTMW NGCTDSVETG KLPRVLQGQE LMGFRTHRVT  420
CAPQTAEVAK FQSSDASRFL TNARSCMLSG PTGRLAVQNS GFTYQSLGFS ESIGFSEVLQ  480
GQEISQAVPM FQGMMSAACS LKGGYGLRGY VHTPAAVNGL SATAQECSLT LCTPPAAQVP  540
PPHPNHMFNQ TVSSQLGLGN KSAGEVANGS QPRPFDMSWE AQTRPQHEIP AQISLDQFEA  600
RRASAPGDAA KIGSGGREVR KTSCRLFGFS LTEKILPADD DGVKEVSYEA ECQNPRMLDL  660
FGYNRSTPSA ALPALCAAPF GM*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldy_A8e-932035618353Auxin response factor 1
4ldy_B8e-932035618353Auxin response factor 1
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.184850.0callus| 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.5NG501200.1.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
GenBankBT0664420.0BT066442.1 Zea mays full-length cDNA clone ZM_BFc0182A22 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025816252.10.0auxin response factor 3-like isoform X2
SwissprotQ5JMM10.0ARFC_ORYSJ; Auxin response factor 3
TrEMBLA0A2T8IK250.0A0A2T8IK25_9POAL; Auxin response factor
STRINGPavir.Eb03157.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP51132756
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G33860.11e-149ARF family protein
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. Song X, et al.
    Rice RNA-dependent RNA polymerase 6 acts in small RNA biogenesis and spikelet development.
    Plant J., 2012. 71(3): p. 378-89
    [PMID:22443269]