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.013G104900.2
Common NamePOPTR_0013s09980g
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: 225aa    MW: 25814.5 Da    PI: 9.8829
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Potri.013G104900.2genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF98.82.1e-31958150
                        S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE CS
              SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeys 50
                        krien++nrqvtf+kRrng+lKKA+ELSvLCdaev++i+fss+g+lyey+
  Potri.013G104900.2  9 KRIENTTNRQVTFCKRRNGLLKKAYELSVLCDAEVSLIVFSSRGRLYEYA 58
                        79***********************************************8 PP
2K-box103.23.4e-34761733100
               K-box   3 kssgksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenka 93 
                         +s++ s +e +a+++qqe+ak++++i+ Lq+++Rhl+Ge +++Ls+keL+qLe++Le+++++iRskK+elll++ie++qk+e el++e  +
  Potri.013G104900.2  76 SSNTASITEINAQYYQQESAKMRQQIQLLQNSNRHLMGEAVSNLSVKELKQLENRLERGMTRIRSKKHELLLAEIEYMQKREIELENESAC 166
                         4455559999********************************************************************************* PP

               K-box  94 Lrkklee 100
                         Lr+k++e
  Potri.013G104900.2 167 LRTKIAE 173
                         ****986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004323.8E-42160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006633.992161IPR002100Transcription factor, MADS-box
CDDcd002651.63E-43278No hitNo description
SuperFamilySSF554553.4E-33277IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PRINTSPR004047.0E-33323IPR002100Transcription factor, MADS-box
PfamPF003194.8E-261057IPR002100Transcription factor, MADS-box
PRINTSPR004047.0E-332338IPR002100Transcription factor, MADS-box
PRINTSPR004047.0E-333859IPR002100Transcription factor, MADS-box
PfamPF014862.7E-2686171IPR002487Transcription factor, K-box
PROSITE profilePS5129715.61587177IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0048316Biological Processseed development
GO:0048481Biological Processplant ovule development
GO:0080155Biological Processregulation of double fertilization forming a zygote and endosperm
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: 225 aa     Download sequence    Send to blast
MGRGKIEIKR IENTTNRQVT FCKRRNGLLK KAYELSVLCD AEVSLIVFSS RGRLYEYANN  60
NIRSTIDRYK KVSSDSSNTA SITEINAQYY QQESAKMRQQ IQLLQNSNRH LMGEAVSNLS  120
VKELKQLENR LERGMTRIRS KKHELLLAEI EYMQKREIEL ENESACLRTK IAEVERLQQA  180
NMVTGEELNA IQALAASRNF FAPHFLEGGT AYPHTYNKKI LHLG*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1tqe_P3e-21173173Myocyte-specific enhancer factor 2B
1tqe_Q3e-21173173Myocyte-specific enhancer factor 2B
1tqe_R3e-21173173Myocyte-specific enhancer factor 2B
1tqe_S3e-21173173Myocyte-specific enhancer factor 2B
6c9l_A3e-21173173Myocyte-specific enhancer factor 2B
6c9l_B3e-21173173Myocyte-specific enhancer factor 2B
6c9l_C3e-21173173Myocyte-specific enhancer factor 2B
6c9l_D3e-21173173Myocyte-specific enhancer factor 2B
6c9l_E3e-21173173Myocyte-specific enhancer factor 2B
6c9l_F3e-21173173Myocyte-specific enhancer factor 2B
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pth.128820.0bud| catkin
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in flowers and seeds (Ref.1). Expressed in endotesta cell layer of developing seeds (PubMed:28369525). {ECO:0000269|PubMed:28369525, ECO:0000269|Ref.1}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in seed development (PubMed:21447172, Ref.1, PubMed:29853599). Plays a role in seed morphogenesis by promoting the correct development of endotesta cell layer, which directs the further development of the seed coat, the endosperm, and consequently the embryo (Ref.1, PubMed:29853599). {ECO:0000269|PubMed:21447172, ECO:0000269|PubMed:29853599, ECO:0000269|Ref.1}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPotri.013G104900.2
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006376118.11e-164agamous-like MADS-box protein AGL11 isoform X2
SwissprotF6I4571e-132AG11C_VITVI; Agamous-like MADS-box protein AGL11
TrEMBLA0A3N7HFR01e-162A0A3N7HFR0_POPTR; Uncharacterized protein
TrEMBLB9MWE91e-162B9MWE9_POPTR; Uncharacterized protein
STRINGcassava4.1_021818m1e-141(Manihot esculenta)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G09960.11e-115MIKC_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. Mejía N, et al.
    Molecular, genetic and transcriptional evidence for a role of VvAGL11 in stenospermocarpic seedlessness in grapevine.
    BMC Plant Biol., 2011. 11: p. 57
    [PMID:21447172]
  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]
  5. Malabarba J, et al.
    The MADS-box gene Agamous-like 11 is essential for seed morphogenesis in grapevine.
    J. Exp. Bot., 2017. 68(7): p. 1493-1506
    [PMID:28369525]
  6. Royo C, et al.
    The Major Origin of Seedless Grapes Is Associated with a Missense Mutation in the MADS-Box Gene VviAGL11.
    Plant Physiol., 2018. 177(3): p. 1234-1253
    [PMID:29853599]