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 Ciclev10013802m
Common NameCICLE_v10013802mg
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 M-type_MADS
Protein Properties Length: 228aa    MW: 25705.3 Da    PI: 9.1919
Description M-type_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Ciclev10013802mgenomeICGCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF671.9e-211864349
                     --SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEE CS
           SRF-TF  3 ienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyey 49
                     i  k n qvtfskRr+g++KKA+ELS+LC++++a+i+fs+ +k + +
  Ciclev10013802m 18 IPKKNNLQVTFSKRRAGVFKKASELSTLCGVDIALIVFSPANKAFSF 64
                     7789999**********************************997766 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004321.1E-30867IPR002100Transcription factor, MADS-box
PROSITE profilePS5006623.296868IPR002100Transcription factor, MADS-box
CDDcd002651.59E-33977No hitNo description
SuperFamilySSF554554.32E-26991IPR002100Transcription factor, MADS-box
PRINTSPR004041.3E-171030IPR002100Transcription factor, MADS-box
PfamPF003191.9E-231764IPR002100Transcription factor, MADS-box
PRINTSPR004041.3E-173045IPR002100Transcription factor, MADS-box
PRINTSPR004041.3E-174566IPR002100Transcription factor, MADS-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 228 aa     Download sequence    Send to blast
MEMKKPCAGR QKIAISKIPK KNNLQVTFSK RRAGVFKKAS ELSTLCGVDI ALIVFSPANK  60
AFSFGHPNVD SILDLYLARN PNPPSESSTD RLIEAHRNAN IRELNMQLTQ VLHQLEVEKK  120
HGEVLSEIRK ASCRQCWWEA PINELGLHEL EQLKTAMEEL KKNVEQQANK ILIDYKNNPS  180
PFFGVNNQNI NPHHHQSKLP LGIPPSSNDA LPNFYSSGFG HYHDHQQ*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
3kov_A7e-18995186Myocyte-specific enhancer factor 2A
3kov_B7e-18995186Myocyte-specific enhancer factor 2A
3kov_I7e-18995186Myocyte-specific enhancer factor 2A
3kov_J7e-18995186Myocyte-specific enhancer factor 2A
3p57_A7e-18995186Myocyte-specific enhancer factor 2A
3p57_B7e-18995186Myocyte-specific enhancer factor 2A
3p57_C7e-18995186Myocyte-specific enhancer factor 2A
3p57_D7e-18995186Myocyte-specific enhancer factor 2A
3p57_I7e-18995186Myocyte-specific enhancer factor 2A
3p57_J7e-18995186Myocyte-specific enhancer factor 2A
5f28_A8e-18995287MEF2C
5f28_B8e-18995287MEF2C
5f28_C8e-18995287MEF2C
5f28_D8e-18995287MEF2C
6c9l_A8e-18992285Myocyte-specific enhancer factor 2B
6c9l_B8e-18992285Myocyte-specific enhancer factor 2B
6c9l_C8e-18992285Myocyte-specific enhancer factor 2B
6c9l_D8e-18992285Myocyte-specific enhancer factor 2B
6c9l_E8e-18992285Myocyte-specific enhancer factor 2B
6c9l_F8e-18992285Myocyte-specific enhancer factor 2B
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed during the syncytial endosperm development. {ECO:0000269|PubMed:18334668}.
UniprotTISSUE SPECIFICITY: Expressed in the endosperm but not in the embryo. Detected in young siliques, roots, leaves, stems, young flowers and anthers. {ECO:0000269|PubMed:18334668}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor. Required for suppression of cellularization and promotion of nuclear proliferation during early endosperm development. The FERTILIZATION-INDEPENDENT SEED (FIS) polycomb complex is required for suppression of ALG62 expression at the end of the syncytial phase of endosperm development. {ECO:0000269|PubMed:18334668}.
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_006480851.11e-168agamous-like MADS-box protein AGL62
SwissprotQ9FKK22e-53AGL62_ARATH; Agamous-like MADS-box protein AGL62
TrEMBLV4URY11e-168V4URY1_9ROSI; Uncharacterized protein
STRINGXP_006429054.11e-169(Citrus clementina)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM8628390
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G60440.17e-56AGAMOUS-like 62
Publications ? help Back to Top
  1. Xu W, et al.
    Endosperm and Nucellus Develop Antagonistically in Arabidopsis Seeds.
    Plant Cell, 2016. 28(6): p. 1343-60
    [PMID:27233529]
  2. Figueiredo DD,Batista RA,Roszak PJ,Köhler C
    Auxin production couples endosperm development to fertilization.
    Nat Plants, 2015. 1: p. 15184
    [PMID:27251719]
  3. Figueiredo DD,Batista RA,Roszak PJ,Hennig L,Köhler C
    Auxin production in the endosperm drives seed coat development in Arabidopsis.
    Elife, 2017.
    [PMID:27848912]
  4. Fiume E,Coen O,Xu W,Lepiniec L,Magnani E
    Growth of the Arabidopsis sub-epidermal integument cell layers might require an endosperm signal.
    Plant Signal Behav, 2017. 12(8): p. e1339000
    [PMID:28613109]
  5. Zhang S, et al.
    FERTILIZATION-INDEPENDENT SEED-Polycomb Repressive Complex 2 Plays a Dual Role in Regulating Type I MADS-Box Genes in Early Endosperm Development.
    Plant Physiol., 2018. 177(1): p. 285-299
    [PMID:29523711]