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.7NG194600.1.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: 662aa    MW: 73484.9 Da    PI: 6.0257
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.7NG194600.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B3772e-24128228198
                          EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE CS
                   B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkl 84 
                          f+k+lt sd++++g +++ +++aee+      ++++++ ++l+ +d++g +W +++i+r++++r++lt+GW+ Fv++++L +gD ++F+ 
  Pavir.7NG194600.1.p 128 FCKTLTASDTSTHGGFSVLRRHAEEClpqldmSQNPPC-QELVAKDLHGTEWHFRHIFRGQPKRHLLTTGWSVFVSSKRLVAGDAFIFM- 215
                          99*****************************7556666.59************************************************. PP

                          -SSSEE..EEEEE- CS
                   B3  85 dgrsefelvvkvfr 98 
                           + +++el+v+v+r
  Pavir.7NG194600.1.p 216 -RGENGELRVGVRR 228
                          .449999*****97 PP
2Auxin_resp100.12.9e-33254339183
           Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsd...ldpvrWpnSkWrsLk 83 
                          a+ha+st++ F+v+Y+Pr+s+s+F+v+v+k+++a k+k+svGmRfkm+fe+++++err+sGt+++++    ++ + W +S WrsLk
  Pavir.7NG194600.1.p 254 ASHAISTGTLFSVFYKPRTSRSDFIVSVNKYLEAKKQKMSVGMRFKMRFEGDEAPERRFSGTIIDIRSlpaMSKSLWADSDWRSLK 339
                          789************************************************************9998622266778********96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019361.7E-44115257IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.101.4E-41125243IPR015300DNA-binding pseudobarrel domain
CDDcd100179.29E-22126228No hitNo description
PfamPF023625.7E-22128228IPR003340B3 DNA binding domain
PROSITE profilePS5086311.716128230IPR003340B3 DNA binding domain
SMARTSM010193.6E-21128230IPR003340B3 DNA binding domain
PfamPF065072.1E-31254339IPR010525Auxin response factor
PfamPF023091.1E-11547639IPR033389AUX/IAA domain
PROSITE profilePS5174526.584550643IPR000270PB1 domain
SuperFamilySSF542771.37E-11553629No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009733Biological Processresponse to auxin
GO:0010150Biological Processleaf senescence
GO:0045892Biological Processnegative regulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0042802Molecular Functionidentical protein binding
Sequence ? help Back to Top
Protein Sequence    Length: 662 aa     Download sequence    Send to blast
MAAAMDVANP GAAAGTGMSS NALYRELWHA CAGPLVTVPR QGERVYYFPQ GHMEQLEAST  60
HQQLDQYLPM FNLPSKILCS VVNVELRAEA DSDEVYAQIM LQPEADQSEL TSPDPELQEP  120
EKCTAHSFCK TLTASDTSTH GGFSVLRRHA EECLPQLDMS QNPPCQELVA KDLHGTEWHF  180
RHIFRGQPKR HLLTTGWSVF VSSKRLVAGD AFIFMRGENG ELRVGVRRLM RQVNSMPSSV  240
ISSHSMHLGV LATASHAIST GTLFSVFYKP RTSRSDFIVS VNKYLEAKKQ KMSVGMRFKM  300
RFEGDEAPER RFSGTIIDIR SLPAMSKSLW ADSDWRSLKV QWDEPSSILR PDRISPWEVE  360
PLDAAQPQSP QPPLRKKRAR PPASPSMVAE LPSGFGLWKS PTDSARTLSF SEPQRARELF  420
PSIPTSTFSS SSNVNFNAKN EPSMLNSQFY WSARDTRADS CAASTNTVIV EKKQEHNSGG  480
CRLFGIDICS TEDEVLPVVT APALGYDQTA ASLVELSSDK LSQPSDVNNS DAPGASSEQL  540
PLESQSRQVR SCTKVIMQGM AVGRAVDLTK LSGYSDLFHK LEEMFDIQGE LGSTLKKWRV  600
IYTDDEDDMM LVGDDPWNEF CDMVKRIYIY TYEEAKKLTS KSKLPGSSDT SKLSDVSSQS  660
E*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A0.053641357Auxin response factor 1
4ldw_A0.053641357Auxin response factor 1
4ldw_B0.053641357Auxin response factor 1
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.161900.0callus| 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).
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00097PBMTransfer from AT1G59750Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapPavir.7NG194600.1.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_025823850.10.0auxin response factor 9-like
SwissprotQ0JCZ40.0ARFI_ORYSJ; Auxin response factor 9
TrEMBLA0A2S3I6V40.0A0A2S3I6V4_9POAL; Auxin response factor
STRINGPavir.Gb01617.1.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
AT1G59750.20.0auxin 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]