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 Ciclev10014200m
Common NameCICLE_v10014200mg
Organism
Citrus clementina
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Sapindales; Rutaceae; Aurantioideae; Citrus
Family ARF
Protein Properties Length: 899aa    MW: 99060 Da    PI: 6.476
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Ciclev10014200mgenomeICGCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B374.41.4e-23128229199
                      EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SS CS
               B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgr 87 
                      f+k+lt sd++++g +++p++ ae+        + +++  ++l+ +d++ ++W++++i+r++++r++lt+GW+ Fv+a++L +gD+v+F   ++
  Ciclev10014200m 128 FCKTLTASDTSTHGGFSVPRRAAEKVfppldysQTPPA--QELIARDLHDNEWKFRHIFRGQPKRHLLTTGWSVFVSAKRLVAGDSVLFI--WN 217
                      99****************************97544444..48************************************************..88 PP

                      SEE..EEEEE-S CS
               B3  88 sefelvvkvfrk 99 
                      ++ +l+++++r+
  Ciclev10014200m 218 EKNQLLLGIRRA 229
                      99999****997 PP
2Auxin_resp121.65.6e-40254337183
       Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                      aahaa+t+s F+++YnPras+seFv++++k++ka++ ++vsvGmRf+m fete+ss rr++Gt++g+sdldpvrWpnS+Wrs+k
  Ciclev10014200m 254 AAHAAATNSRFTIFYNPRASPSEFVIPLAKYVKAVYhTRVSVGMRFRMLFETEESSVRRYMGTITGISDLDPVRWPNSHWRSVK 337
                      79*********************************9789******************************************985 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019361.18E-48113257IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.106.5E-42121243IPR015300DNA-binding pseudobarrel domain
CDDcd100171.07E-21127228No hitNo description
PfamPF023621.0E-21128229IPR003340B3 DNA binding domain
PROSITE profilePS5086312.478128230IPR003340B3 DNA binding domain
SMARTSM010195.8E-24128230IPR003340B3 DNA binding domain
PfamPF065077.9E-35254337IPR010525Auxin response factor
SuperFamilySSF542779.81E-8757839No hitNo description
PfamPF023091.8E-6758847IPR033389AUX/IAA domain
PROSITE profilePS5174525.074765849IPR000270PB1 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: 899 aa     Download sequence    Send to blast
MRLATSGFNQ QTQEGEKKCL NSELWHACAG PLVSLPPVGS RVVYFPQGHS EQVAASTNKE  60
VDAHIPNYPN LPPQLICQLH NLTMHADVET DEVYAQMTLQ PLSPQEQKDV YLLPAELGAP  120
NKQPTNYFCK TLTASDTSTH GGFSVPRRAA EKVFPPLDYS QTPPAQELIA RDLHDNEWKF  180
RHIFRGQPKR HLLTTGWSVF VSAKRLVAGD SVLFIWNEKN QLLLGIRRAT RPQTVMPSSV  240
LSSDSMHIGL LAAAAHAAAT NSRFTIFYNP RASPSEFVIP LAKYVKAVYH TRVSVGMRFR  300
MLFETEESSV RRYMGTITGI SDLDPVRWPN SHWRSVKVGW DESTAGERQP RVSLWEIEPL  360
TTFPMYSSPF PLRLKRPWPS GLPSFHGMKD GDMSINSPLM WLQGGVGDQG IQSLNFQGYG  420
VTPWMQPRLD ASIPGLQPDV YQAMAAAALQ EMRTVDSSKL ASQSLLQFQQ SQNVSNGTAS  480
MIPRQMLQQS QAQNALLQSF QENHASAQAQ LLQQQLQRQH SYNEQRQQQQ QVQQSQQLHQ  540
LSVQPQISNV ISTLPHLASS SQSQPPTLQT VASQCQQSNF SDSLGNPIAS SDVSSMHTIL  600
GSLSQAGASH LLNSNASNPI ISSSAMLTKQ VTVDNHVPSA VSQCILPQVE QLGAQQSNVS  660
ELTSLLPPFP GREYSSYHGS GDPQNNLLFG VSIDSSLMGQ NGLPNLKNIS SENESLSLPY  720
AASNFTNNVG TDFPLNSDMT TSSCVDESGF LQSSENVDQV NPPTRTFVKV HKSGSFGRSL  780
DISKFSSYDE LRGELARMFG LEGQLEDPQR SGWQLVFVDR ENDVLLLGDD PWQEFVNNVG  840
YIKILSPLEV QQMGKGLSPV TSGPGQRLSS NNNFDDYVSR QELRSSSNGV ASMGSINY*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-1641135841388Auxin response factor 5
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).
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).
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_006446840.10.0auxin response factor 6
SwissprotA2X1A10.0ARFF_ORYSI; Auxin response factor 6
SwissprotQ6H6V40.0ARFF_ORYSJ; Auxin response factor 6
TrEMBLV4U7I50.0V4U7I5_9ROSI; Auxin response factor
STRINGXP_006446840.10.0(Citrus clementina)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM13442894
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G30330.10.0auxin response factor 6
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]