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 Gorai.005G263100.1
Common NameB456_005G263100, LOC105796236
Organism
Gossypium raimondii
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Malvoideae; Gossypium
Family M-type_MADS
Protein Properties Length: 233aa    MW: 26195.8 Da    PI: 8.8233
Description M-type_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.005G263100.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF69.33.5e-221762449
                        -SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEE CS
              SRF-TF  4 enksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyey 49
                        +n+sn qvtfskRr g++KKA+EL++LC++e+ +i+fs+ +k++ +
  Gorai.005G263100.1 17 KNNSNLQVTFSKRRSGLFKKASELCTLCGVEIGIIVFSPGNKVFSF 62
                        89****************************************9987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004323.0E-31665IPR002100Transcription factor, MADS-box
PROSITE profilePS5006623.787666IPR002100Transcription factor, MADS-box
SuperFamilySSF554558.37E-27782IPR002100Transcription factor, MADS-box
CDDcd002654.13E-34778No hitNo description
PRINTSPR004043.9E-18828IPR002100Transcription factor, MADS-box
PfamPF003194.4E-241662IPR002100Transcription factor, MADS-box
PRINTSPR004043.9E-182843IPR002100Transcription factor, MADS-box
PRINTSPR004043.9E-184364IPR002100Transcription 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: 233 aa     Download sequence    Send to blast
MGKKSLGRQK VEMVKMKNNS NLQVTFSKRR SGLFKKASEL CTLCGVEIGI IVFSPGNKVF  60
SFGHPEIGNV IDRYVNGNPP DNSGTLHLIE AHRNANVREL NMQLTELVNQ IEIEKRRGEE  120
LNQMRRASQS QYWWESPIEE QNPQQLQQLK SALEELKKNV AKQVEKLLIQ TTNSQPFFVG  180
SSSAGMFPNN VEFDPNTMSQ GYNNVPNMIP PGFNPNPELY NPCPPGFGHA FF*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
3kov_A5e-17785179Myocyte-specific enhancer factor 2A
3kov_B5e-17785179Myocyte-specific enhancer factor 2A
3kov_I5e-17785179Myocyte-specific enhancer factor 2A
3kov_J5e-17785179Myocyte-specific enhancer factor 2A
3p57_A5e-17785179Myocyte-specific enhancer factor 2A
3p57_B5e-17785179Myocyte-specific enhancer factor 2A
3p57_C5e-17785179Myocyte-specific enhancer factor 2A
3p57_D5e-17785179Myocyte-specific enhancer factor 2A
3p57_I5e-17785179Myocyte-specific enhancer factor 2A
3p57_J5e-17785179Myocyte-specific enhancer factor 2A
5f28_A6e-17685180MEF2C
5f28_B6e-17685180MEF2C
5f28_C6e-17685180MEF2C
5f28_D6e-17685180MEF2C
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_012481265.11e-171PREDICTED: agamous-like MADS-box protein AGL62
RefseqXP_017632483.11e-171PREDICTED: agamous-like MADS-box protein AGL62
SwissprotQ9FKK29e-62AGL62_ARATH; Agamous-like MADS-box protein AGL62
TrEMBLA0A0D2SNQ81e-170A0A0D2SNQ8_GOSRA; Uncharacterized protein
STRINGGorai.005G263100.11e-171(Gossypium raimondii)
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
AT5G60440.14e-64AGAMOUS-like 62
Publications ? help Back to Top
  1. Paterson AH, et al.
    Repeated polyploidization of Gossypium genomes and the evolution of spinnable cotton fibres.
    Nature, 2012. 492(7429): p. 423-7
    [PMID:23257886]
  2. Xu W, et al.
    Endosperm and Nucellus Develop Antagonistically in Arabidopsis Seeds.
    Plant Cell, 2016. 28(6): p. 1343-60
    [PMID:27233529]
  3. Figueiredo DD,Batista RA,Roszak PJ,Köhler C
    Auxin production couples endosperm development to fertilization.
    Nat Plants, 2015. 1: p. 15184
    [PMID:27251719]
  4. 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]
  5. 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]
  6. 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]