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.6KG323300.1.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: 682aa    MW: 74097.2 Da    PI: 6.2086
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.6KG323300.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B373.72.3e-23132233199
                          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 +F + ++L +gD v+F 
  Pavir.6KG323300.1.p 132 FCKTLTASDTSTHGGFSVPRRAAEDCfppldydQLRP--SQELIAKDLHGMKWRFRHIYRGQPRRHLLTTGWTSFINKKKLVSGDAVLFL 219
                          99****************************9876665..458************************************************ PP

                          E-SSSEE..EEEEE-S CS
                   B3  84 ldgrsefelvvkvfrk 99 
                            + s+++l+++v+r+
  Pavir.6KG323300.1.p 220 --RGSDGKLRLGVRRA 233
                          ..4499999****996 PP
2Auxin_resp96.34.7e-32259339283
           Auxin_resp   2 ahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                          +++++++s+F++ +nPr+++seF+v++ k++++l++++s+GmRfk+  e+ed+++r+  G+++g+s++d++ Wp+SkWr+L+
  Pavir.6KG323300.1.p 259 VSSLENRSIFHISFNPRTGASEFIVPYCKFLETLNCPFSIGMRFKVGSENEDANQRS-CGLISGISEVDSIGWPGSKWRCLQ 339
                          67899**************************************************99.8**********************7 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019361.09E-43121258IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.104.4E-38129235IPR015300DNA-binding pseudobarrel domain
CDDcd100171.16E-21130232No hitNo description
PROSITE profilePS5086312.943132234IPR003340B3 DNA binding domain
PfamPF023621.9E-21132233IPR003340B3 DNA binding domain
SMARTSM010193.1E-22132234IPR003340B3 DNA binding domain
PfamPF065071.8E-26260339IPR010525Auxin 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: 682 aa     Download sequence    Send to blast
MGIDLNAVEE DEPAGAVCGE LWHACAGAGV ALPRRGSAVV YLPQAHLAAG GCGDGMEVPA  60
GPAARVPPHV ACRVVDVDLR ADAATDEVYA RLALVAEGKM FDQDIHDAEI EEKNCEMEDG  120
DGEKKLRTSH MFCKTLTASD TSTHGGFSVP RRAAEDCFPP LDYDQLRPSQ ELIAKDLHGM  180
KWRFRHIYRG QPRRHLLTTG WTSFINKKKL VSGDAVLFLR GSDGKLRLGV RRAVQLKNEA  240
LLEAVNSTDS KQRTLSAVVS SLENRSIFHI SFNPRTGASE FIVPYCKFLE TLNCPFSIGM  300
RFKVGSENED ANQRSCGLIS GISEVDSIGW PGSKWRCLQV KWDGDTNCNH QNRVSPWEIE  360
RVGSSISVPH CLSSSVSKRT KLCFTQGDLD APILDGNGRP DSLETECLHR VLQGQELVRS  420
RTHGAACSHS SDTPKCQGSY ERRFSDDVWN CKMNDAMSGL RDQNATGFAY QPLGFSESVR  480
FPEVLQGQEM SRAVPSFLGA AFGARIQNGR IGSFDVQRTA GTQGYPLQQF SLLATEAHSP  540
SSVLMVNQTT VLQPELQGMA NLEQANGSPY AHIATQREAE TWPSTQQQRA SETGSELFNT  600
AEASAPAAVA KSGLADKGVR RSSCRLFGFS LTDEILVAEE DGGKENYEAP QTPRVLDLFG  660
HSQSTPSALP LHALCAAPLG I*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldy_A3e-981436416357Auxin response factor 1
4ldy_B3e-981436416357Auxin response factor 1
Search in ModeBase
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.6KG323300.1.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Down-regulated by auxin under light condition. {ECO:0000269|PubMed:17408882}.
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_025807096.10.0auxin response factor 14-like isoform X1
SwissprotQ0DGS10.0ARFN_ORYSJ; Auxin response factor 14
TrEMBLA0A2T7EBI20.0A0A2T7EBI2_9POAL; Auxin response factor
STRINGGRMZM2G441325_P010.0(Zea mays)
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-151ARF family protein
Publications ? help Back to Top
  1. Cheng CH, et al.
    A fine physical map of the rice chromosome 5.
    Mol. Genet. Genomics, 2005. 274(4): p. 337-45
    [PMID:16261349]