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.007G009800.1
Common NameB456_007G009800, LOC105801767
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 MIKC_MADS
Protein Properties Length: 199aa    MW: 23231.6 Da    PI: 9.7945
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Gorai.007G009800.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF93.21.2e-29959151
                        S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
              SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                        krien + rqvtfskRrng+lKKA+EL vLCdaevaviifs++gklye+ss
  Gorai.007G009800.1  9 KRIENATSRQVTFSKRRNGLLKKAYELYVLCDAEVAVIIFSNKGKLYEFSS 59
                        79***********************************************96 PP
2K-box69.41.2e-2379171597
               K-box   5 sgksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLr 95 
                         s++ + e+  ++l+ e++++ k+ie L+ ++R++lG++L+s+s+ eLq++e+qLe+sl++iR++K  l++eqi +l+ ke+ +qeen +L+
  Gorai.007G009800.1  79 SNTPQIERYRQQLRLEAENMAKKIEFLEVSKRRMLGQNLGSCSIDELQEVENQLERSLRNIRARKGYLFKEQILQLKAKERYMQEENAKLS 169
                         444477788899******************************************************************************9 PP

               K-box  96 kk 97 
                         +k
  Gorai.007G009800.1 170 AK 171
                         87 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006632.029161IPR002100Transcription factor, MADS-box
SMARTSM004321.9E-39160IPR002100Transcription factor, MADS-box
CDDcd002659.63E-41376No hitNo description
PRINTSPR004042.0E-31323IPR002100Transcription factor, MADS-box
SuperFamilySSF554551.57E-32375IPR002100Transcription factor, MADS-box
PfamPF003191.3E-261057IPR002100Transcription factor, MADS-box
PRINTSPR004042.0E-312338IPR002100Transcription factor, MADS-box
PRINTSPR004042.0E-313859IPR002100Transcription factor, MADS-box
PfamPF014866.1E-2388171IPR002487Transcription factor, K-box
PROSITE profilePS5129713.61188183IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009838Biological Processabscission
GO:0009909Biological Processregulation of flower development
GO:0010150Biological Processleaf senescence
GO:0080187Biological Processfloral organ senescence
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: 199 aa     Download sequence    Send to blast
MVRGKIQIKR IENATSRQVT FSKRRNGLLK KAYELYVLCD AEVAVIIFSN KGKLYEFSSC  60
DNMQNTIERY RQYKKDVQSN TPQIERYRQQ LRLEAENMAK KIEFLEVSKR RMLGQNLGSC  120
SIDELQEVEN QLERSLRNIR ARKGYLFKEQ ILQLKAKERY MQEENAKLSA KNNGTTCSQQ  180
NAEVETELFL GLPENRCS*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6byy_A1e-19181180MEF2 CHIMERA
6byy_B1e-19181180MEF2 CHIMERA
6byy_C1e-19181180MEF2 CHIMERA
6byy_D1e-19181180MEF2 CHIMERA
6bz1_A9e-20184183MEF2 CHIMERA
6bz1_B9e-20184183MEF2 CHIMERA
6bz1_C9e-20184183MEF2 CHIMERA
6bz1_D9e-20184183MEF2 CHIMERA
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed in the shoot apical meristem (SAM) during the vegetative phase and the floral transition. After floral transition, expressed in apical meristem (AM), inflorescence meristem (IM) and floral primordia. {ECO:0000269|PubMed:21609362}.
UniprotTISSUE SPECIFICITY: Expressed in quiescent center (QC) cells of root tips (PubMed:18162590, PubMed:21689171). Expressed at the base of the petiole of cotyledons and leaves, in flower buds, petals, sepals and abscission zone of flowers and siliques. {ECO:0000269|PubMed:18162590, ECO:0000269|PubMed:21689171}.
Functional Description ? help Back to Top
Source Description
UniProtMADS-box transcription factor that acts with AGL71 and AGL72 in the control of flowering time. Promotes flowering at the shoot apical and axillary meristems. Seems to act through a gibberellin-dependent pathway. Interacts genetically with SOC1 and its expression is directly regulated by SOC1 (PubMed:21609362). Plays a role in controlling flower organ senescence and abscission by repressing ethylene responses and regulating the expression of BOP2 and IDA (PubMed:21689171). {ECO:0000269|PubMed:21609362, ECO:0000269|PubMed:21689171}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00576DAPTransfer from AT5G62165Download
Motif logo
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankHM2364300.0HM236430.1 Gossypium hirsutum MADS15 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_012488492.11e-142PREDICTED: MADS-box protein SOC1-like isoform X1
SwissprotQ9FIS17e-78AGL42_ARATH; MADS-box protein AGL42
TrEMBLA0A0D2T7041e-140A0A0D2T704_GOSRA; Uncharacterized protein
STRINGGorai.007G009800.11e-141(Gossypium raimondii)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM7828413
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G62165.33e-80AGAMOUS-like 42
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]