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 Sof009532
Organism
Saccharum officinarum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Andropogonodae; Andropogoneae; Saccharinae; Saccharum; Saccharum officinarum complex
Family ARF
Protein Properties Length: 266aa    MW: 29851 Da    PI: 8.7973
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PUT-157a-Saccharum_officinarum-20416PU_refplantGDBView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B375.27.7e-2455156199
                EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..E CS
         B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelv 93 
                f+k+lt sd++++g +++ +++a+e+       +++++  ++l+ +d++g +W++++i+r++++r++l++GW+ Fv++++L +gD ++F   + +++el+
  Sof009532  55 FCKTLTASDTSTHGGFSVLRRHADEClppldmtQSPPT--QELVAKDLHGMEWRFRHIFRGQPRRHLLQNGWSVFVSSKRLVAGDAFIFL--RGENGELR 150
                99*****************************7555544..58************************************************..449999** PP

                EEEE-S CS
         B3  94 vkvfrk 99 
                v+v+r+
  Sof009532 151 VGVRRA 156
                ***996 PP
2Auxin_resp88.41.4e-29181254174
  Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrW 74 
                 a+ha++tks+F+v+Y+Pr+s+seF+++++++++a+k+++s+GmRf+m+fe+e+++ r l G+ vgv+ l  + W
   Sof009532 181 AWHAINTKSMFTVYYKPRTSPSEFIIPYDQYMEAVKNNYSIGMRFRMRFEGEEAPSRGLLGQSVGVKILTHYGW 254
                 89*****************************************************************9999988 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.101.2E-4144170IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019362.35E-4050184IPR015300DNA-binding pseudobarrel domain
CDDcd100172.19E-2253155No hitNo description
PfamPF023629.5E-2255156IPR003340B3 DNA binding domain
PROSITE profilePS5086311.91455157IPR003340B3 DNA binding domain
SMARTSM010197.6E-2355157IPR003340B3 DNA binding domain
PfamPF065076.5E-25181254IPR010525Auxin 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: 266 aa     Download sequence    Send to blast
XLLCRVLNVE LKAEADTDEV YAQIMLMPEP EQTDVAAEKA SSTSAASPRP TVRSFCKTLT  60
ASDTSTHGGF SVLRRHADEC LPPLDMTQSP PTQELVAKDL HGMEWRFRHI FRGQPRRHLL  120
QNGWSVFVSS KRLVAGDAFI FLRGENGELR VGVRRAMRQL STVPSSVISS QSMHLGVLAT  180
AWHAINTKSM FTVYYKPRTS PSEFIIPYDQ YMEAVKNNYS IGMRFRMRFE GEEAPSRGLL  240
GQSVGVKILT HYGWIELEKL EGALGI
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-119224773316Auxin response factor 1
4ldw_A1e-119224773316Auxin response factor 1
4ldw_B1e-119224773316Auxin response factor 1
4ldx_A1e-119224773316Auxin response factor 1
4ldx_B1e-119224773316Auxin response factor 1
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Sof.100128e-40bud| inflorescence| leaf| meristem| 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).
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_001307056.11e-164uncharacterized protein LOC100274571
RefseqXP_004971147.11e-164auxin response factor 4 isoform X1
SwissprotQ5JK201e-156ARFD_ORYSJ; Auxin response factor 4
TrEMBLA0A1D6N2H51e-163A0A1D6N2H5_MAIZE; Auxin response factor
STRINGSi000340m1e-163(Setaria italica)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G62000.31e-132auxin response factor 2
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]
  3. Kishimoto N, et al.
    Identification of the duplicated segments in rice chromosomes 1 and 5 by linkage analysis of cDNA markers of known functions.
    Theor. Appl. Genet., 1994. 88(6-7): p. 722-6
    [PMID:24186168]