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 GRMZM2G338259_P01
Common NameLOC100274571
Organism
Zea mays
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; Tripsacinae; Zea
Family ARF
Protein Properties Length: 822aa    MW: 91852.9 Da    PI: 6.9097
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GRMZM2G338259_P01genomeMaizeSequenceView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B373.23.1e-23128229199
                        EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE- CS
                 B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkld 85 
                        f+k+lt sd++++g +++ +++a+e+       +++++  ++l+ +d++g +W++++i+r++++r++l++GW+ Fv++++L +gD ++F   
  GRMZM2G338259_P01 128 FCKTLTASDTSTHGGFSVLRRHADEClppldmtQSPPT--QELVAKDLHGMEWRFRHIFRGQPRRHLLQSGWSVFVSSKRLVAGDAFIFL-- 215
                        99*****************************7555544..58************************************************.. PP

                        SSSEE..EEEEE-S CS
                 B3  86 grsefelvvkvfrk 99 
                        + +++el+v+v+r+
  GRMZM2G338259_P01 216 RGENGELRVGVRRA 229
                        449999*****996 PP
2Auxin_resp112.54.1e-37254335183
         Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                        a+ha++tks+F+v+Y+Pr+s+seF+++++++++++k+++s+GmRf+m+fe+e+++e+r++Gt+vg ++ldp  Wp+S Wr Lk
  GRMZM2G338259_P01 254 AWHAINTKSMFTVYYKPRTSPSEFIIPYDQYMESVKNNYSIGMRFRMRFEGEEAPEQRFTGTIVGCENLDP-LWPDSSWRYLK 335
                        89*********************************************************************.9*******996 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.103.6E-41118243IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.31E-39123257IPR015300DNA-binding pseudobarrel domain
CDDcd100174.00E-21126228No hitNo description
PfamPF023624.1E-21128229IPR003340B3 DNA binding domain
PROSITE profilePS5086311.928128230IPR003340B3 DNA binding domain
SMARTSM010191.8E-23128230IPR003340B3 DNA binding domain
PfamPF065071.5E-33254335IPR010525Auxin response factor
PfamPF023092.6E-11674768IPR033389AUX/IAA domain
SuperFamilySSF542771.62E-11684768No hitNo description
PROSITE profilePS5174520.954690772IPR000270PB1 domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009734Biological Processauxin-activated signaling pathway
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 822 aa     Download sequence    Send to blast
MPPATAMAPP SQPPSNSGDP LYPELWRACA GPLVTVPRVG DLVFYFPQGH IEQVEASMNQ  60
VAGNQMRLYD LPPKLLCRVL NVELKAETDT DEVYAQIMLM PEPEQTDVPA EKPSSAPAAS  120
PRPAVRSFCK TLTASDTSTH GGFSVLRRHA DECLPPLDMT QSPPTQELVA KDLHGMEWRF  180
RHIFRGQPRR HLLQSGWSVF VSSKRLVAGD AFIFLRGENG ELRVGVRRAM RQLSNVPSSV  240
ISSQSMHLGV LATAWHAINT KSMFTVYYKP RTSPSEFIIP YDQYMESVKN NYSIGMRFRM  300
RFEGEEAPEQ RFTGTIVGCE NLDPLWPDSS WRYLKVRWDE PSTIPRPDRV SPWKIEPASS  360
PPVNPLVHSS RAKRPRQNVP PPSLESSVLT KEGATKVEID SAQTQHQNSV LQGQEQMTLR  420
NNLTESADSD STVQKPMMWS PSLNGKAHTH FQQRPAMDNW MPLGRRENDF KDTRSAFKDA  480
RTASQSFGDT QGFFVQAYDD NHHRLSFKNQ GSTHRFADPY FYMPQQSSVT VESSTRTQTA  540
NNDLCFWGDQ NAMYGNPSDQ QQGFNFGQNP SSWLNQPFPQ VEQPRVVRPH ATVAPFDLEK  600
TREGSGFKIF GFQVDTTSPS PVQLSSPLPA IQEHVLQTRP SAPVNELQPV QIECLPEGSV  660
STAGTATENI QQAPQSSKDI QSKSQGASTR SCTKVHKQGV ALGRSVDLSK FTDYGELQAE  720
LDKMFDFEGE LVSGSQNWQI VYTDDEGDMM LVGDDPWEVL QHSAQDLHLH EGGGPEDELE  780
ISCAKEGGIS GSGRRRRLRR RHKRVRKAKG KCIEGKASGG WS
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-1651936017357Auxin response factor 1
4ldw_A1e-1651936017357Auxin response factor 1
4ldw_B1e-1651936017357Auxin response factor 1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1793803RRRRLRRRHKR
2795803RRLRRRHKR
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Zm.1179920.0cell culture| ear| embryo| endosperm| glume| meristem| ovary| pericarp| root| shoot| tassel
Expression -- Microarray ? help Back to Top
Source ID
Expression AtlasGRMZM2G338259
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
PlantRegMapGRMZM2G338259_P01
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT0433920.0BT043392.1 Zea mays full-length cDNA clone ZM_BFc0176G08 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_001307056.10.0uncharacterized protein LOC100274571
SwissprotQ5JK200.0ARFD_ORYSJ; Auxin response factor 4
TrEMBLA0A1D6N2H00.0A0A1D6N2H0_MAIZE; Auxin response factor
STRINGGRMZM2G338259_P010.0(Zea mays)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP117836111
Representative plantOGRP5501582
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G62000.30.0auxin 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]