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 Cotton_A_02783_BGI-A2_v1.0
Organism
Gossypium arboreum
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 MIKC_MADS
Protein Properties Length: 212aa    MW: 23945.3 Da    PI: 6.075
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cotton_A_02783_BGI-A2_v1.0genomeBGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF892.6e-28959151
                                S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
                      SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                                k+i+n + rqvtfskRr g++KKAeELSvLCdaeva+iifs tgkl+e++s
  Cotton_A_02783_BGI-A2_v1.0  9 KKIDNLTARQVTFSKRRRGLFKKAEELSVLCDAEVALIIFSATGKLFEFAS 59
                                68***********************************************86 PP
2K-box29.33.7e-11891361764
                       K-box  17 lqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkk 64 
                                  +++  +L+kei    r++R++ GedL+ L+++eLqqLe  Le++lk 
  Cotton_A_02783_BGI-A2_v1.0  89 ENNNNIRLNKEIVDKTRQLRQMRGEDLQGLNIEELQQLEGMLESGLKC 136
                                 555666899999999999****************************86 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006630.263161IPR002100Transcription factor, MADS-box
SMARTSM004322.8E-39160IPR002100Transcription factor, MADS-box
CDDcd002659.64E-40275No hitNo description
PRINTSPR004043.1E-27323IPR002100Transcription factor, MADS-box
SuperFamilySSF554553.01E-31374IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003194.2E-251057IPR002100Transcription factor, MADS-box
PRINTSPR004043.1E-272338IPR002100Transcription factor, MADS-box
PRINTSPR004043.1E-273859IPR002100Transcription factor, MADS-box
PROSITE profilePS512978.81686170IPR002487Transcription factor, K-box
PfamPF014867.6E-890135IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0000060Biological Processprotein import into nucleus, translocation
GO:0009739Biological Processresponse to gibberellin
GO:0010076Biological Processmaintenance of floral meristem identity
GO:0010077Biological Processmaintenance of inflorescence meristem identity
GO:0010220Biological Processpositive regulation of vernalization response
GO:0010582Biological Processfloral meristem determinacy
GO:0045893Biological Processpositive regulation of transcription, DNA-templated
GO:0048438Biological Processfloral whorl development
GO:0048510Biological Processregulation of timing of transition from vegetative to reproductive phase
GO:0005634Cellular Componentnucleus
GO:0005737Cellular Componentcytoplasm
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0042803Molecular Functionprotein homodimerization activity
GO:0043565Molecular Functionsequence-specific DNA binding
GO:0046982Molecular Functionprotein heterodimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 212 aa     Download sequence    Send to blast
MAREKIKIKK IDNLTARQVT FSKRRRGLFK KAEELSVLCD AEVALIIFSA TGKLFEFASS  60
SMKDILGRYN LHSNNINKLD QPSLDLQLEN NNNIRLNKEI VDKTRQLRQM RGEDLQGLNI  120
EELQQLEGML ESGLKCLFFW ITKIDVDVQG ARLLEENKQL KEKVATLYKS KRDSDVVGEE  180
GVSSESVTNV CSCSSSCPPL EDDSSDTSLR LG
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A4e-20169169MEF2C
5f28_B4e-20169169MEF2C
5f28_C4e-20169169MEF2C
5f28_D4e-20169169MEF2C
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription activator that mediates floral transition in response to vernalization. Promotes inflorescence fate in apical meristems. Acts in a dosage-dependent manner. Probably involved in the transduction of RLK-mediated signaling (e.g. IMK3 pathway). Together with AP1 and SVP, controls the identity of the floral meristem and regulates expression of class B, C and E genes. When associated with SOC1, mediates effect of gibberellins on flowering under short-day conditions, and regulates the expression of LEAFY (LFY), which links floral induction and floral development. Confers inflorescence characteristics to floral primordia and early flowering. {ECO:0000269|PubMed:12451184, ECO:0000269|PubMed:12609028, ECO:0000269|PubMed:12881501, ECO:0000269|PubMed:14716314, ECO:0000269|PubMed:16679456, ECO:0000269|PubMed:18339670, ECO:0000269|PubMed:18466303, ECO:0000269|PubMed:18694458, ECO:0000269|PubMed:19656343}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Induced by vernalization in a FLC-independent manner. Repressed by the floral homeotic genes AP1, LFY and SEP3 in emerging floral meristems to establish a floral identity and prevent inflorescence fate. Up-regulated at the shoot apex by SOC1. {ECO:0000269|PubMed:12609028, ECO:0000269|PubMed:14716314, ECO:0000269|PubMed:17428825, ECO:0000269|PubMed:18339670, ECO:0000269|PubMed:18694458}.
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankKC1556320.0KC155632.1 Gossypium hirsutum MADS box protein MADS37 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_017645939.11e-137PREDICTED: MADS-box protein AGL24-like
SwissprotO827943e-82AGL24_ARATH; MADS-box protein AGL24
TrEMBLU5L2F21e-134U5L2F2_GOSHI; MADS box protein MADS37
STRINGGorai.010G035000.11e-132(Gossypium raimondii)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM41902747
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G24540.13e-76AGAMOUS-like 24
Publications ? help Back to Top
  1. Ramamoorthy R,Phua EE,Lim SH,Tan HT,Kumar PP
    Identification and characterization of RcMADS1, an AGL24 ortholog from the holoparasitic plant Rafflesia cantleyi Solms-Laubach (Rafflesiaceae).
    PLoS ONE, 2013. 8(6): p. e67243
    [PMID:23840638]
  2. Lei HJ, et al.
    Identification and characterization of FaSOC1, a homolog of SUPPRESSOR OF OVEREXPRESSION OF CONSTANS1 from strawberry.
    Gene, 2013. 531(2): p. 158-67
    [PMID:24055423]
  3. Wells CE,Vendramin E,Jimenez Tarodo S,Verde I,Bielenberg DG
    A genome-wide analysis of MADS-box genes in peach [Prunus persica (L.) Batsch].
    BMC Plant Biol., 2015. 15: p. 41
    [PMID:25848674]
  4. Sacharowski SP, et al.
    SWP73 Subunits of Arabidopsis SWI/SNF Chromatin Remodeling Complexes Play Distinct Roles in Leaf and Flower Development.
    Plant Cell, 2015. 27(7): p. 1889-906
    [PMID:26106148]
  5. Sun LM,Zhang JZ,Hu CG
    Characterization and Expression Analysis of PtAGL24, a SHORT VEGETATIVE PHASE/AGAMOUS-LIKE 24 (SVP/AGL24)-Type MADS-Box Gene from Trifoliate Orange (Poncirus trifoliata L. Raf.).
    Front Plant Sci, 2016. 7: p. 823
    [PMID:27375669]