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 Seita.5G004300.1.p
Common NameLOC101786343, SETIT_000540mg
Organism
Setaria italica
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; Cenchrinae; Setaria
Family ARF
Protein Properties Length: 688aa    MW: 76878.8 Da    PI: 5.6573
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Seita.5G004300.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B369.93.3e-22116216198
                         EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE- CS
                  B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkld 85 
                         f+k+ltpsd++++g +++ +++a+e+      +++ + +++l+ +d++g +W++k+iyr++++r++lt+GW+ Fv +++L +gD +v  ++
  Seita.5G004300.1.p 116 FCKILTPSDTSTHGGFSVLRRHANEClppldmSMP-TPTQELITKDLHGSEWRFKHIYRGQPRRHLLTTGWSTFVTSKKLIAGDAFVYLRS 205
                         99****************************96444.45569999*******************************************9944 PP

                         SSSEE..EEEEE- CS
                  B3  86 grsefelvvkvfr 98 
                           ++++ +v+v+r
  Seita.5G004300.1.p 206 --ETGQQRVGVRR 216
                         ..66666999987 PP
2Auxin_resp97.12.5e-32242323183
          Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                         a+ha++t+s+F v+Y+Pr s+s+++v+++k+++a k+ + vGmRfkm+fe+ed++ +++sGtvv+  dl+p +W++S+W+ Lk
  Seita.5G004300.1.p 242 ASHAIKTNSIFLVYYRPRLSQSQYIVSLNKYLEASKIGFNVGMRFKMSFEGEDVPVKKFSGTVVDKGDLSP-QWQGSEWKTLK 323
                         789********************************************************************.********996 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019364.71E-37106245IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.104.3E-36109231IPR015300DNA-binding pseudobarrel domain
CDDcd100173.32E-17114216No hitNo description
SMARTSM010194.5E-17116218IPR003340B3 DNA binding domain
PfamPF023624.2E-20116216IPR003340B3 DNA binding domain
PROSITE profilePS5086311.152116218IPR003340B3 DNA binding domain
PfamPF065075.0E-28242323IPR010525Auxin response factor
PfamPF023097.0E-6569625IPR033389AUX/IAA domain
PROSITE profilePS5174520.881589671IPR000270PB1 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: 688 aa     Download sequence    Send to blast
MAQGREPELF AELWRACAGP LVELPQTDER VFYFLQGHLE QLQEPTDPAL LAEQIKMFQV  60
PNKILCKVVN VELKAETETD EMFAQITLQP DPDQVNLPTL PDPPLPETPR PVVHSFCKIL  120
TPSDTSTHGG FSVLRRHANE CLPPLDMSMP TPTQELITKD LHGSEWRFKH IYRGQPRRHL  180
LTTGWSTFVT SKKLIAGDAF VYLRSETGQQ RVGVRRLVQK QSAMPASVIS SQSMHLGVLA  240
SASHAIKTNS IFLVYYRPRL SQSQYIVSLN KYLEASKIGF NVGMRFKMSF EGEDVPVKKF  300
SGTVVDKGDL SPQWQGSEWK TLKVQWDEAT NLNGPERVSS WEIEPFDAST PTINIPVQQS  360
TKNKRPRETA ESLDIQAMEP TQEFWLSGMP EQHEKAGIGS SEPNCISGHQ VVWTSERAGY  420
SAMSSSVCQN SVVLGNWFKD FNSSSKGASP SLSEISQKLF QVTSNDARVP PWPGLSAYQA  480
EEPSSKLSSN TALCSYQTEE VAPNFSNAVE EKKEPGMFRL FGVNLINHTR NAAASEKMTV  540
GVREISTRTA GSLEDSGQLS ALSKVTKDHT QNVNESPREI QSHQNCTGRT RIKVQMQGNA  600
VGRAIDLVNL HGYPQLISEL DEMFEIKDLS SKEKWKVAFT NDEGDTMEVG DVPWLKFCQT  660
VRKIVIHPIE DESDMDPFLE QDVKTDF*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-148935319362Auxin response factor 1
4ldw_A1e-148935319362Auxin response factor 1
4ldw_B1e-148935319362Auxin response factor 1
4ldx_A1e-148935319362Auxin response factor 1
4ldx_B1e-148935319362Auxin response factor 1
Search in ModeBase
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
PlantRegMapSeita.5G004300.1.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By auxin under light or dark conditions. {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_004967361.10.0auxin response factor 1
SwissprotQ5NB850.0ARFA_ORYSJ; Auxin response factor 1
TrEMBLK3XF710.0K3XF71_SETIT; Auxin response factor
STRINGSi000540m0.0(Setaria italica)
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
AT4G23980.10.0auxin response factor 9
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]