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_17354_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: 197aa    MW: 23004.3 Da    PI: 8.7835
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cotton_A_17354_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-TF92.91.5e-29959151
                                S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
                      SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                                krien+snrqvt+skRrngi+KKA+E+ vLCda+v++iif+s+gk++ey+s
  Cotton_A_17354_BGI-A2_v1.0  9 KRIENSSNRQVTYSKRRNGIMKKAKEITVLCDAKVSLIIFASSGKMHEYCS 59
                                79***********************************************96 PP
2K-box68.91.7e-2371135165
                       K-box   1 yqkssgksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkki 65 
                                 yqk+sgk+l++ak+e+l++e++++kke++++q e+Rhl+Ged++sL +keL+ Le++Le++l+  
  Cotton_A_17354_BGI-A2_v1.0  71 YQKTSGKKLWDAKHENLSNEIDRIKKENDSMQIELRHLKGEDITSLPYKELMALEDALENGLTCT 135
                                 899***********************************************************976 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004329.4E-41160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006632.534161IPR002100Transcription factor, MADS-box
SuperFamilySSF554556.41E-37296IPR002100Transcription factor, MADS-box
CDDcd002656.75E-43280No hitNo description
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PRINTSPR004047.8E-29323IPR002100Transcription factor, MADS-box
PfamPF003195.0E-231057IPR002100Transcription factor, MADS-box
PRINTSPR004047.8E-292338IPR002100Transcription factor, MADS-box
PRINTSPR004047.8E-293859IPR002100Transcription factor, MADS-box
PfamPF014862.9E-1382135IPR002487Transcription factor, K-box
PROSITE profilePS5129710.49184180IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0010093Biological Processspecification of floral organ identity
GO:0005634Cellular Componentnucleus
GO:0005737Cellular Componentcytoplasm
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 197 aa     Download sequence    Send to blast
MGRGKIEIKR IENSSNRQVT YSKRRNGIMK KAKEITVLCD AKVSLIIFAS SGKMHEYCSP  60
STKLIDILDQ YQKTSGKKLW DAKHENLSNE IDRIKKENDS MQIELRHLKG EDITSLPYKE  120
LMALEDALEN GLTCTKFLEE DNKQLNFIVN QQQLTYENVR EHMDHHGYHR AARADFNSQM  180
PFAFRVQPMQ PNLQERM
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6bz1_A1e-17191183MEF2 CHIMERA
6bz1_B1e-17191183MEF2 CHIMERA
6bz1_C1e-17191183MEF2 CHIMERA
6bz1_D1e-17191183MEF2 CHIMERA
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor that may play role in specifying stamen and petal organ identity. {ECO:0000269|PubMed:23181568, ECO:0000269|Ref.1, ECO:0000305|PubMed:17920788}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00080ChIP-seqTransfer from AT5G20240Download
Motif logo
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankFJ4098690.0FJ409869.1 Gossypium hirsutum MADS-12 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_012482533.11e-144PREDICTED: floral homeotic protein PMADS 2-like
RefseqXP_016693674.11e-144PREDICTED: floral homeotic protein PMADS 2-like
RefseqXP_017648636.11e-144PREDICTED: floral homeotic protein PMADS 2-like
SwissprotQ0HA251e-106MADS9_VITVI; Agamous-like MADS-box protein MADS9
TrEMBLA0A2P5RSX61e-143A0A2P5RSX6_GOSBA; Uncharacterized protein
STRINGGorai.005G087600.11e-143(Gossypium raimondii)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM53002751
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G20240.14e-83MIKC_MADS family protein
Publications ? help Back to Top
  1. Jaillon O, et al.
    The grapevine genome sequence suggests ancestral hexaploidization in major angiosperm phyla.
    Nature, 2007. 449(7161): p. 463-7
    [PMID:17721507]
  2. Díaz-Riquelme J,Lijavetzky D,Martínez-Zapater JM,Carmona MJ
    Genome-wide analysis of MIKCC-type MADS box genes in grapevine.
    Plant Physiol., 2009. 149(1): p. 354-69
    [PMID:18997115]
  3. Grimplet J,Martínez-Zapater JM,Carmona MJ
    Structural and functional annotation of the MADS-box transcription factor family in grapevine.
    BMC Genomics, 2016. 17: p. 80
    [PMID:26818751]