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 Potri.013G102600.1
Organism
Populus trichocarpa
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Salicaceae; Saliceae; Populus
Family MIKC_MADS
Protein Properties Length: 203aa    MW: 23371.2 Da    PI: 8.632
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Potri.013G102600.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF81.26.8e-26958150
                        S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE CS
              SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeys 50
                        krien+  rqvtf+kRr g+lKKA+ELSvLCdae+ v ifs +gklye +
  Potri.013G102600.1  9 KRIENSVHRQVTFCKRRSGLLKKAKELSVLCDAEIGVFIFSAHGKLYELA 58
                        79*********************************************965 PP
2K-box65.12.5e-229017515100

  




Protein Features
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3D Structure
 

Database
Entry ID
E-value
Start
End
InterPro ID
Description



PROSITE profilePS5006629.857161IPR002100Transcription factor, MADS-box
SuperFamilySSF554559.55E-28174IPR002100Transcription factor, MADS-box
SMARTSM004322.3E-35160IPR002100Transcription factor, MADS-box
CDDcd002653.17E-39276No hitNo description
PRINTSPR004042.8E-27323IPR002100Transcription factor, MADS-box
PfamPF003191.5E-221056IPR002100Transcription factor, MADS-box
PRINTSPR004042.8E-272338IPR002100Transcription factor, MADS-box
PRINTSPR004042.8E-273859IPR002100Transcription factor, MADS-box
PROSITE profilePS5129711.6689179IPR002487Transcription factor, K-box
PfamPF014861.5E-2290173IPR002487Transcription factor, K-box

 





Gene Ontology ? help Back to Top




GO Term
GO Category
GO Description



GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0010228Biological Processvegetative to reproductive phase transition of meristem
GO:0048364Biological Processroot 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: 203 aa    
Download sequence    Send
to blast





MARGKVQMKR IENSVHRQVT FCKRRSGLLK KAKELSVLCD AEIGVFIFSA HGKLYELATK  60
GTMQGLIERY MKSSRGTQPE PAAIETQPDM DVKEEINMLK QEIEILQKGL RYMFGGRAAE  120
MTLDELIELE KHLEIWIYQI RSTKMDIMFK EIQQLRNKEG ILKAANQYLQ DKVEENIVIT  180
NSAPITTNIP YPLTIQNEIF QY*





  




3D Structure ? help Back to Top



Structure
 




PDB ID
Evalue
Query Start
Query End
Hit Start
Hit End
Description



6byy_A2e-15190184MEF2 CHIMERA
6byy_B2e-15190184MEF2 CHIMERA
6byy_C2e-15190184MEF2 CHIMERA
6byy_D2e-15190184MEF2 CHIMERA
 
Search in ModeBase

   

 


 
  




Expression --
Description ? help
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Source
Description



UniprotDEVELOPMENTAL STAGE: During embryo development, expressed in a punctate pattern from the globular stage to the torpedo stage. {ECO:0000269|PubMed:11855641}.
UniprotTISSUE SPECIFICITY: Preferentially expressed in roots (PubMed:7549482). In root meristem, expressed in external cells of columella, lateral root cap and atrichoblasts. In mature root, expressed in the central cylinder (PubMed:11855641). Expressed in leaf vasculature, young floral meristems and nectaries (PubMed:18203871). {ECO:0000269|PubMed:11855641, ECO:0000269|PubMed:18203871, ECO:0000269|PubMed:7549482}.








Functional Description  ? help
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Source
Description



UniProtProbable transcription activator that regulates root development by controlling cell proliferation in root meristem. May mediate responses to auxin in the root. May act as promoter of the flowering transition through up-regulation of SOC, FT and LFY. {ECO:0000269|PubMed:18203871}.
 











Cis-element
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SourceLink
PlantRegMapPotri.013G102600.1








Regulation -- Description  ? help
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Source
Description



UniProtINDUCTION: By auxin in root phloem. {ECO:0000269|PubMed:18203871}.
 



Regulation -- PlantRegMap  ? help
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Source
Upstream Regulator
Target Gene



PlantRegMapRetrieve-
 






 




Annotation --
Nucleotide ? help
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Source
Hit ID
E-value
Description



GenBankDQ5189140.0DQ518914.1 Populus tomentosa MADS box transcription factor (MADS2) mRNA, complete cds.

 




Annotation -- Protein
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Source
Hit ID
E-value
Description



RefseqXP_006376144.21e-149agamous-like MADS-box protein AGL12 isoform X1 
SwissprotQ388415e-84AGL12_ARATH; Agamous-like MADS-box protein AGL12
TrEMBLA0A2K1Y3T01e-147A0A2K1Y3T0_POPTR; Uncharacterized protein
STRINGPOPTR_0019s10540.11e-119(Populus trichocarpa)

 





Orthologous Group
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LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF75663144
Representative plantOGRP1617761
  




Best hit in Arabidopsis thaliana ? help
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Hit ID
E-value
Description



AT1G71692.12e-86AGAMOUS-like 12


 

 




Publications
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  1. Zimmermann P,Hirsch-Hoffmann M,Hennig L,Gruissem W
    GENEVESTIGATOR. Arabidopsis microarray database and analysis toolbox.
    Plant Physiol., 2004. 136(1): p. 2621-32
    [PMID:15375207]
  2. Pacheco-Escobedo MA, et al.
    Longitudinal zonation pattern in Arabidopsis root tip defined by a multiple structural change algorithm.
    Ann. Bot., 2018.
    [PMID:27358290]
  3. García-Cruz KV, et al.
    The MADS-box XAANTAL1 increases proliferation at the Arabidopsis root stem-cell niche and participates in transition to differentiation by regulating cell-cycle components.
    Ann. Bot., 2018.
    [PMID:27474508]
    4.