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 Thecc1EG043157t1
Common NameTCM_043157
Organism
Theobroma cacao
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Byttnerioideae; Theobroma
Family ARF
Protein Properties Length: 687aa    MW: 75483.9 Da    PI: 6.5074
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Thecc1EG043157t1genomeCGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B375.56.1e-24121222199
                       EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-S CS
                B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldg 86 
                       f k+lt+sd+++ g +++p+ +ae++        +++ +  t+  +d +g++W++++iyr++++r++lt+GW++Fv++++L +gD++vF   +
  Thecc1EG043157t1 121 FAKTLTQSDANNGGGFSVPRYCAETIfprldynAEPPVQ--TILAKDVHGEVWKFRHIYRGTPRRHLLTTGWSNFVNQKKLVAGDSIVFL--R 209
                       89****************************985444444..8999*********************************************..4 PP

                       SSEE..EEEEE-S CS
                B3  87 rsefelvvkvfrk 99 
                       ++++ l+v+++r+
  Thecc1EG043157t1 210 TENGDLCVGIRRA 222
                       588999****997 PP
2Auxin_resp116.81.9e-38282365183
        Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrl.sGtvvgvsdldpvrWpnSkWrsLk 83 
                       aa+ a+++++FevvY+Prast+eF+vk++++++a+++++ +GmRfkmafetedss++++ +Gt+++v+ +dp+rWpnS+Wr+L+
  Thecc1EG043157t1 282 AATCAANGQPFEVVYYPRASTPEFCVKASSIRAAMQIQWYPGMRFKMAFETEDSSRISWfMGTISSVQVVDPIRWPNSPWRLLQ 365
                       678899****************************************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.101.8E-37115225IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019363.27E-29116225IPR015300DNA-binding pseudobarrel domain
CDDcd100173.95E-22120221No hitNo description
PfamPF023624.6E-22121222IPR003340B3 DNA binding domain
PROSITE profilePS5086313.408121223IPR003340B3 DNA binding domain
SMARTSM010193.6E-22121223IPR003340B3 DNA binding domain
PfamPF065073.8E-33282365IPR010525Auxin response factor
PROSITE profilePS5174517.661600680IPR000270PB1 domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0007389Biological Processpattern specification process
GO:0009734Biological Processauxin-activated signaling pathway
GO:0048829Biological Processroot cap development
GO:0051301Biological Processcell division
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 687 aa     Download sequence    Send to blast
MITVMDSRKE LLKNSEKCLD PQLWHACAGG MVQMPSVNTK VFYFPQGHAE HANGSVDFGS  60
LLIPSLVLCR IAAVKYMADP ETDEVYSKIM LVPSRENDFG YEDDGFDGNI GMENPEKPAS  120
FAKTLTQSDA NNGGGFSVPR YCAETIFPRL DYNAEPPVQT ILAKDVHGEV WKFRHIYRGT  180
PRRHLLTTGW SNFVNQKKLV AGDSIVFLRT ENGDLCVGIR RAKRGIGSGH EYPCGWNSGG  240
GSSGSQFGGY SPFFREDESK SMRKDSNGDM RGKVRVESVI EAATCAANGQ PFEVVYYPRA  300
STPEFCVKAS SIRAAMQIQW YPGMRFKMAF ETEDSSRISW FMGTISSVQV VDPIRWPNSP  360
WRLLQVAWDE PDLLHNVKRV SPWLVELVSN IPAIHLNPFS PPRKKMRLPQ HPDFSLLSQI  420
PMPSFSGNSL RSSSPVCCIT DNIPGGIQGA RHAPFGLSSS DLHSNKLQSG LFPLGLQQLD  480
HTAPPTRISN DNLSSDHVNK KNISCMLTTG NPTQSLKESN EVKTPHILLF GQLIFSEQQA  540
SQSCSGDTVG NSSSDGNTEK TAISSDGSGS ALHQNAQENS SEEGSAWCKE HQRSDLGLEA  600
GHCKVFMESE NVGRTLDLSV LRSYEELHGK LANMFGIESS EMLSSVLYCD AAGSVKHTGD  660
EPFSEFLKTA RRLTILMDSG SDNVGR*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-781038638388Auxin response factor 5
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).
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00461DAPTransfer from AT4G30080Download
Motif logo
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_007009852.20.0PREDICTED: auxin response factor 18
RefseqXP_017985073.10.0PREDICTED: auxin response factor 18
RefseqXP_017985074.10.0PREDICTED: auxin response factor 18
SwissprotQ653H70.0ARFR_ORYSJ; Auxin response factor 18
TrEMBLA0A061FPV20.0A0A061FPV2_THECC; Auxin response factor
STRINGEOY186620.0(Theobroma cacao)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM58027130
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G30080.10.0auxin response factor 16
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. Motamayor JC, et al.
    The genome sequence of the most widely cultivated cacao type and its use to identify candidate genes regulating pod color.
    Genome Biol., 2013. 14(6): p. r53
    [PMID:23731509]
  3. Huang J,Li Z,Zhao D
    Deregulation of the OsmiR160 Target Gene OsARF18 Causes Growth and Developmental Defects with an Alteration of Auxin Signaling in Rice.
    Sci Rep, 2016. 6: p. 29938
    [PMID:27444058]