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.019G076800.1
Common NamePOPTR_0019s10540g
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: 207aa    MW: 23721.5 Da    PI: 7.7021
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Potri.019G076800.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF82.62.5e-261058250
                        ---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE CS
              SRF-TF  2 rienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeys 50
                        rien+  rqvtf+kRr+g+lKKA+ELSvLCdae+ v+ifs +gklye +
  Potri.019G076800.1 10 RIENHVHRQVTFCKRRAGLLKKAKELSVLCDAEIGVVIFSAHGKLYELA 58
                        8*********************************************965 PP
2K-box56.21.5e-199417817100
               K-box  17 lqqelakLkkeienLqreqRhllGed.LesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkklee 100
                          ++e++ Lk+eie Lq+ +R + G     ++sl eL  Le++Le  + +iRs+K+++++++i++l++ke+ l  +n+ L++k+ee
  Potri.019G076800.1  94 TKEEINMLKQEIEVLQKGLRYMFGARaAAEMSLDELLVLEKHLEIWIYQIRSTKMDIMFKEIQQLRNKEEILTAANQHLHNKVEE 178
                         589*********************862579****************************************************987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF554551.19E-27174IPR002100Transcription factor, MADS-box
SMARTSM004328.6E-35160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006629.801161IPR002100Transcription factor, MADS-box
CDDcd002651.50E-39278No hitNo description
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PRINTSPR004045.4E-27323IPR002100Transcription factor, MADS-box
PfamPF003191.4E-231056IPR002100Transcription factor, MADS-box
PRINTSPR004045.4E-272338IPR002100Transcription factor, MADS-box
PRINTSPR004045.4E-273859IPR002100Transcription factor, MADS-box
PROSITE profilePS5129711.56991182IPR002487Transcription factor, K-box
PfamPF014865.4E-2194176IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
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: 207 aa     Download sequence    Send to blast
MARGKVQLRR IENHVHRQVT FCKRRAGLLK KAKELSVLCD AEIGVVIFSA HGKLYELATK  60
GTMQGLIERY MKSSRGAQPE PAAMETQPAP DLDTKEEINM LKQEIEVLQK GLRYMFGARA  120
AAEMSLDELL VLEKHLEIWI YQIRSTKMDI MFKEIQQLRN KEEILTAANQ HLHNKVEENA  180
EITNFVSVTS DFPHPLTIQN EIIFQY*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A1e-15159159MEF2C
5f28_B1e-15159159MEF2C
5f28_C1e-15159159MEF2C
5f28_D1e-15159159MEF2C
6byy_A1e-15196192MEF2 CHIMERA
6byy_B1e-15196192MEF2 CHIMERA
6byy_C1e-15196192MEF2 CHIMERA
6byy_D1e-15196192MEF2 CHIMERA
Search in ModeBase
Expression -- Description ? help Back to Top
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 Back to Top
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 ? help Back to Top
SourceLink
PlantRegMapPotri.019G076800.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By auxin in root phloem. {ECO:0000269|PubMed:18203871}.
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_024447649.11e-153agamous-like MADS-box protein AGL12 isoform X1
SwissprotQ388411e-78AGL12_ARATH; Agamous-like MADS-box protein AGL12
TrEMBLA0A2K1WR831e-152A0A2K1WR83_POPTR; Uncharacterized protein
STRINGPOPTR_0019s10540.11e-147(Populus trichocarpa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF75663144
Representative plantOGRP1617761
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G71692.14e-81AGAMOUS-like 12
Publications ? help Back to Top
  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]