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 Thecc1EG011484t1
Common NameTCM_011484
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 YABBY
Protein Properties Length: 239aa    MW: 26137.1 Da    PI: 8.6545
Description YABBY family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Thecc1EG011484t1genomeCGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1YABBY59.11.9e-1877124148
             YABBY   1 advfssseqvCyvqCnfCntilavsvPstslfkvvtvrCGhCtsllsv 48 
                       +d++ +se++Cyv+CnfCnt+lav +P + l+ +vtv+CGhC++l  +
  Thecc1EG011484t1  77 MDLVPQSEHLCYVRCNFCNTVLAVGIPCKRLLDTVTVKCGHCSNLSFL 124
                       578899*************************************98544 PP
2YABBY95.21.6e-29161222102163
             YABBY 102 senedeevprvppvirPPekrqrvPsaynrfikeeiqrikasnPdishreafsaaaknWahf 163
                       s +++ ++p++p v++PPek+ r Psaynrf+keeiqrika+nP+i hreafsaaaknWa +
  Thecc1EG011484t1 161 SPSSEPSSPKAPFVVKPPEKKHRLPSAYNRFMKEEIQRIKAANPEIPHREAFSAAAKNWARY 222
                       5566778999999***********************************************76 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF046906.3E-5282222IPR006780YABBY protein
SuperFamilySSF470951.44E-8166220IPR009071High mobility group box domain
Gene3DG3DSA:1.10.30.104.8E-5176221IPR009071High mobility group box domain
CDDcd013907.47E-6183219No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0010254Biological Processnectary development
GO:0010582Biological Processfloral meristem determinacy
GO:0048479Biological Processstyle development
Sequence ? help Back to Top
Protein Sequence    Length: 239 aa     Download sequence    Send to blast
MPPKGPGSLV FFVHQEDNSV LEKDIKNPNL FSLLLKPTAP LFTSLAALCS ILFSSLLFPS  60
LPFPSFDNMN LEEKVGMDLV PQSEHLCYVR CNFCNTVLAV GIPCKRLLDT VTVKCGHCSN  120
LSFLSTRPPL QGQCLDPQTS LSLQSFCGDF RKGQSPSPSS SPSSEPSSPK APFVVKPPEK  180
KHRLPSAYNR FMKEEIQRIK AANPEIPHRE AFSAAAKNWA RYIPNSPATS VSGSRSNE*
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor required for the initiation of nectary development. Also involved in suppressing early radial growth of the gynoecium, in promoting its later elongation and in fusion of its carpels by regulating both cell division and expansion. Establishes the polar differentiation in the carpels by specifying abaxial cell fate in the ovary wall. Regulates both cell division and expansion. {ECO:0000269|PubMed:10225997, ECO:0000269|PubMed:10225998, ECO:0000269|PubMed:10535738, ECO:0000269|PubMed:11714690, ECO:0000269|PubMed:15598802, ECO:0000269|Ref.10}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00220DAPTransfer from AT1G69180Download
Motif logo
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Down-regulated by SPT and by A class genes AP2 and LUG in the outer whorl. In the third whorl, B class genes AP3 and PI, and the C class gene AG act redundantly with each other and in combination with SEP1, SEP2, SEP3, SHP1 and SHP2 to activate CRC in nectaries and carpels. LFY enhances its expression. {ECO:0000269|PubMed:10225998, ECO:0000269|PubMed:15598802}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY8548041e-178AY854804.1 Gossypium hirsutum isolate 1 CRABS CLAW mRNA, partial cds.
GenBankAY8548051e-178AY854805.1 Gossypium hirsutum isolate 2 CRABS CLAW mRNA, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_017970271.11e-121PREDICTED: protein CRABS CLAW isoform X2
SwissprotQ8L9252e-69CRC_ARATH; Protein CRABS CLAW
TrEMBLA0A061EB611e-172A0A061EB61_THECC; Plant-specific transcription factor YABBY family protein
STRINGEOY016371e-173(Theobroma cacao)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM97252835
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G69180.13e-71YABBY family protein
Publications ? help Back to Top
  1. 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]
  2. Fourquin C,Primo A,Martínez-Fernández I,Huet-Trujillo E,Ferrándiz C
    The CRC orthologue from Pisum sativum shows conserved functions in carpel morphogenesis and vascular development.
    Ann. Bot., 2014. 114(7): p. 1535-44
    [PMID:24989787]
  3. Pfannebecker KC,Lange M,Rupp O,Becker A
    Seed Plant-Specific Gene Lineages Involved in Carpel Development.
    Mol. Biol. Evol., 2017. 34(4): p. 925-942
    [PMID:28087776]
  4. Yamaguchi N,Huang J,Xu Y,Tanoi K,Ito T
    Fine-tuning of auxin homeostasis governs the transition from floral stem cell maintenance to gynoecium formation.
    Nat Commun, 2017. 8(1): p. 1125
    [PMID:29066759]
  5. Yamaguchi N, et al.
    Chromatin-mediated feed-forward auxin biosynthesis in floral meristem determinacy.
    Nat Commun, 2018. 9(1): p. 5290
    [PMID:30538233]