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 Ciclev10014198m
Common NameCICLE_v10014198mg
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: 900aa    MW: 99437.9 Da    PI: 6.6536
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Ciclev10014198mgenomeICGCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B374.71.1e-23127228199
                      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   ++
  Ciclev10014198m 127 FCKTLTASDTSTHGGFSVPRRAAEKVfppldfsQQPPA--QELIARDLHDNEWKFRHIFRGQPKRHLLTTGWSVFVSAKRLVAGDSVLFI--WN 216
                      99*****************************8544444..48************************************************..78 PP

                      SEE..EEEEE-S CS
               B3  88 sefelvvkvfrk 99 
                      ++ +l+++++r+
  Ciclev10014198m 217 DKNQLLLGIRRA 228
                      88889****997 PP
2Auxin_resp119.92e-39253336183
       Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                      aahaa+t+s F+++YnPras+seFv++++k+ ka++ ++vsvGmRf+m fete+ss rr++Gt++g+sdldpv+WpnS+Wrs+k
  Ciclev10014198m 253 AAHAAATNSRFTIFYNPRASPSEFVIPLAKYIKAVYhTRVSVGMRFRMLFETEESSVRRYMGTITGISDLDPVKWPNSHWRSVK 336
                      79*********************************9789******************************************985 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019363.53E-48112256IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.103.0E-41121242IPR015300DNA-binding pseudobarrel domain
CDDcd100171.40E-21126227No hitNo description
SMARTSM010192.8E-24127229IPR003340B3 DNA binding domain
PfamPF023625.3E-22127228IPR003340B3 DNA binding domain
PROSITE profilePS5086312.52127229IPR003340B3 DNA binding domain
PfamPF065072.3E-34253336IPR010525Auxin response factor
SuperFamilySSF542776.54E-7758841No hitNo description
PfamPF023096.3E-7763854IPR033389AUX/IAA domain
PROSITE profilePS5174523.182766850IPR000270PB1 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:0009908Biological Processflower development
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 900 aa     Download sequence    Send to blast
MRLSTAGFSP QHQEGEKRVL NSELWHACAG PLVSLPAVGS RVVYFPQGHS EQVAASTNKE  60
VDAHIPNYPS LPPQLICQLH NVTMHADIET DEVYAQMTLQ PLSPQEQKEA YLPAELGTLS  120
KQPTNYFCKT LTASDTSTHG GFSVPRRAAE KVFPPLDFSQ QPPAQELIAR DLHDNEWKFR  180
HIFRGQPKRH LLTTGWSVFV SAKRLVAGDS VLFIWNDKNQ LLLGIRRANR PPTVMPSSVL  240
SSDSMHLGLL AAAAHAAATN SRFTIFYNPR ASPSEFVIPL AKYIKAVYHT RVSVGMRFRM  300
LFETEESSVR RYMGTITGIS DLDPVKWPNS HWRSVKVGWD ESTAGERQPR VSLWEIEPLT  360
TFPMYSSPFP LRLKRPWPVG LPAFHGIKDE DLGINSQLMW LRGDGDRGMQ SLNFQGLGVT  420
PWMQPRMDAS MLGLQNDMYQ AMAAAALREM RAVDPSKPNA ASLMQFQQPQ NLPSRTSALV  480
QSQMLQQSHP QQTFLQGVQE NQHQSQSQTH SQSHLLQPQL QHSHSFNNQQ QQPLPQPQQQ  540
VDHQQIPSAV SAMSQFASVS QSQSPPMQAI SSLCQQQSFS DSNGNPATNP IVSPLHSLLG  600
SYAQDESSHL LNLPRSNPLI HSPTWPSKRA AVEPLFSSGA PQCVLPSVEQ LGPPHANISQ  660
NSISLPPFPG RECSIDQEVS ADPQSHLLFG VNIEPSSLLM QNEMSSLGGV GSNSDSTTIP  720
FASSNYMSTA GADFSVNPEI APSSCIDESG FLQSPENVGQ VNPPNRTFVK VYKSGSFGRS  780
LDITKFSSYH ELRSELARMF GLEGHLEDPL RSGWQLVFVD RENDVLLLGD GPWPEFVNSV  840
WCIKILSPPE VQQMGKRGNE LLNSVPIQRL SNSSCDDYAT RQDSRNLSAG ITSVGSLDF*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-1621135741388Auxin 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_006448968.10.0auxin response factor 6 isoform X1
SwissprotA2X1A10.0ARFF_ORYSI; Auxin response factor 6
SwissprotQ6H6V40.0ARFF_ORYSJ; Auxin response factor 6
TrEMBLA0A2H5N1890.0A0A2H5N189_CITUN; Auxin response factor
TrEMBLV4TNZ90.0V4TNZ9_9ROSI; Auxin response factor
STRINGXP_006448968.10.0(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]