PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Cotton_A_29164_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: 220aa    MW: 25291.8 Da    PI: 9.9443
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cotton_A_29164_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-TF99.51.3e-31958150
                                S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE CS
                      SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeys 50
                                krien++nrqvtf+kRrng+lKKA+ELSvLCdaeva+i+fss+g+lyey+
  Cotton_A_29164_BGI-A2_v1.0  9 KRIENTTNRQVTFCKRRNGLLKKAYELSVLCDAEVALIVFSSRGRLYEYA 58
                                79***********************************************8 PP
2K-box1011.6e-33821749100
                       K-box   9 leeak.aeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqee 90 
                                 ++ea+ ++ +qqe++kL+++i+  q+ +Rh+lGe L+sL++keL++Le +Lek++ +iRskKnell+++i  +qk+e elq++
  Cotton_A_29164_BGI-A2_v1.0  82 VAEANiQAIYQQEATKLRRQIRDVQNMNRHILGEALSSLTFKELKNLEGRLEKGICRIRSKKNELLFAEIGFMQKREVELQND 164
                                 44444045699************************************************************************ PP

                       K-box  91 nkaLrkklee 100
                                 n++Lr+k++e
  Cotton_A_29164_BGI-A2_v1.0 165 NMYLRAKIAE 174
                                 *******986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006634.132161IPR002100Transcription factor, MADS-box
SMARTSM004321.1E-42160IPR002100Transcription factor, MADS-box
SuperFamilySSF554555.76E-33273IPR002100Transcription factor, MADS-box
CDDcd002658.04E-45275No hitNo description
PRINTSPR004043.5E-33323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003197.6E-271057IPR002100Transcription factor, MADS-box
PRINTSPR004043.5E-332338IPR002100Transcription factor, MADS-box
PRINTSPR004043.5E-333859IPR002100Transcription factor, MADS-box
PfamPF014861.8E-2584172IPR002487Transcription factor, K-box
PROSITE profilePS5129714.3388178IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0048481Biological Processplant ovule development
GO:0005634Cellular Componentnucleus
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: 220 aa     Download sequence    Send to blast
MGRGKIEIKR IENTTNRQVT FCKRRNGLLK KAYELSVLCD AEVALIVFSS RGRLYEYANN  60
SVRATIERYK KACSDATTPG SVAEANIQAI YQQEATKLRR QIRDVQNMNR HILGEALSSL  120
TFKELKNLEG RLEKGICRIR SKKNELLFAE IGFMQKREVE LQNDNMYLRA KIAENERAQQ  180
QSNQLIQAAS SYNRNFLPVN LLEPSNNDYS NQDQTPLQLV
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1tqe_P4e-21169169Myocyte-specific enhancer factor 2B
1tqe_Q4e-21169169Myocyte-specific enhancer factor 2B
1tqe_R4e-21169169Myocyte-specific enhancer factor 2B
1tqe_S4e-21169169Myocyte-specific enhancer factor 2B
5f28_A5e-21169169MEF2C
5f28_B5e-21169169MEF2C
5f28_C5e-21169169MEF2C
5f28_D5e-21169169MEF2C
6byy_A6e-21169169MEF2 CHIMERA
6byy_B6e-21169169MEF2 CHIMERA
6byy_C6e-21169169MEF2 CHIMERA
6byy_D6e-21169169MEF2 CHIMERA
6c9l_A4e-21169169Myocyte-specific enhancer factor 2B
6c9l_B4e-21169169Myocyte-specific enhancer factor 2B
6c9l_C4e-21169169Myocyte-specific enhancer factor 2B
6c9l_D4e-21169169Myocyte-specific enhancer factor 2B
6c9l_E4e-21169169Myocyte-specific enhancer factor 2B
6c9l_F4e-21169169Myocyte-specific enhancer factor 2B
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in flower development. {ECO:0000250|UniProtKB:Q0HA25}.
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankEF2020910.0EF202091.1 Gossypium hirsutum MADS-box protein MADS7 mRNA, complete cds, alternatively spliced.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_016751271.11e-157PREDICTED: agamous-like MADS-box protein AGL1 isoform X1
RefseqXP_017603391.11e-157PREDICTED: agamous-like MADS-box protein AGL1
SwissprotQ93XH41e-122MADS1_VITVI; Agamous-like MADS-box protein MADS1
TrEMBLA0A1U8PJ971e-156A0A1U8PJ97_GOSHI; agamous-like MADS-box protein AGL1 isoform X1
STRINGGorai.012G042600.11e-154(Gossypium raimondii)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM33412350
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G58780.11e-121MIKC_MADS family protein
Publications ? help Back to Top
  1. Boss PK,Vivier M,Matsumoto S,Dry IB,Thomas MR
    A cDNA from grapevine (Vitis vinifera L.), which shows homology to AGAMOUS and SHATTERPROOF, is not only expressed in flowers but also throughout berry development.
    Plant Mol. Biol., 2001. 45(5): p. 541-53
    [PMID:11414613]
  2. Jaillon O, et al.
    The grapevine genome sequence suggests ancestral hexaploidization in major angiosperm phyla.
    Nature, 2007. 449(7161): p. 463-7
    [PMID:17721507]
  3. 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]
  4. 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]