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 GSBRNA2T00062460001
Common NameGSBRNA2T00062460001
Organism
Brassica napus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
Family MIKC_MADS
Protein Properties Length: 212aa    MW: 23885.5 Da    PI: 8.0606
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00062460001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF81.84.6e-26957149
                         S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEE CS
               SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyey 49
                         krien   rqvtf+kRr+g+lKKA+ELSvLCdaev v+ifs++gkl+e 
  GSBRNA2T00062460001  9 KRIENPVHRQVTFCKRRTGLLKKAKELSVLCDAEVGVMIFSPQGKLFEL 57
                         79********************************************996 PP
2K-box424.1e-1510018119100
                K-box  19 qelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkklee 100
                           +++ Lk+ei++Lq+ +R + G + ++++l+eL  Le++Le  +++iRs +  +  + + + +   + l+++nk+L +k+ee
  GSBRNA2T00062460001 100 DQVNELKQEIDMLQKGIRYMFGGGDGTMNLQELLLLEKHLEYWISHIRSAQVTHPSTTLAQARFTAEFLKNANKYLLEKIEE 181
                          6899***************************************************************************997 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004325.0E-37160IPR002100Transcription factor, MADS-box
SuperFamilySSF554557.85E-29176IPR002100Transcription factor, MADS-box
PROSITE profilePS5006629.885161IPR002100Transcription factor, MADS-box
CDDcd002652.07E-41278No hitNo description
PRINTSPR004042.8E-27323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003199.6E-241056IPR002100Transcription factor, MADS-box
PRINTSPR004042.8E-272338IPR002100Transcription factor, MADS-box
PRINTSPR004042.8E-273859IPR002100Transcription factor, MADS-box
PROSITE profilePS512978.9395185IPR002487Transcription factor, K-box
PfamPF014862.6E-1399179IPR002487Transcription 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: 212 aa     Download sequence    Send to blast
MARGKIQLKR IENPVHRQVT FCKRRTGLLK KAKELSVLCD AEVGVMIFSP QGKLFELATK  60
GTMEGMIDKY MKCTGGGRGS SSATFTAQEQ LQPPNLDPKD QVNELKQEID MLQKGIRYMF  120
GGGDGTMNLQ ELLLLEKHLE YWISHIRSAQ VTHPSTTLAQ ARFTAEFLKN ANKYLLEKIE  180
ENNNSVLDAN FATVETNYSY PLTMPNEIFE F*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A8e-16170169MEF2C
5f28_B8e-16170169MEF2C
5f28_C8e-16170169MEF2C
5f28_D8e-16170169MEF2C
6byy_A8e-16170169MEF2 CHIMERA
6byy_B8e-16170169MEF2 CHIMERA
6byy_C8e-16170169MEF2 CHIMERA
6byy_D8e-16170169MEF2 CHIMERA
6bz1_A9e-16170169MEF2 CHIMERA
6bz1_B9e-16170169MEF2 CHIMERA
6bz1_C9e-16170169MEF2 CHIMERA
6bz1_D9e-16170169MEF2 CHIMERA
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bna.268492e-81root
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
PlantRegMapGSBRNA2T00062460001
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 -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK2281900.0AK228190.1 Arabidopsis thaliana mRNA for MADS-box protein AGL12, complete cds, clone: RAFL14-63-K22.
GenBankATU201930.0U20193.1 Arabidopsis thaliana MADS-box protein AGL12 (AGL12) mRNA, complete cds.
GenBankBT0061570.0BT006157.1 Arabidopsis thaliana clone RAFL17-04-C08 (R50439) putative MADS-box protein (At1g71692) mRNA, complete cds.
GenBankBT0083320.0BT008332.1 Arabidopsis thaliana At1g71692 gene, complete cds.
GenBankBT0085240.0BT008524.1 Arabidopsis thaliana clone U50439 putative MADS-box protein (At1g71692) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013693918.11e-132agamous-like MADS-box protein AGL12
SwissprotQ388411e-122AGL12_ARATH; Agamous-like MADS-box protein AGL12
TrEMBLA0A078HG041e-157A0A078HG04_BRANA; BnaCnng07880D protein
STRINGBo6g094120.11e-129(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM70522641
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G71692.11e-125AGAMOUS-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. Chalhoub B, et al.
    Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome.
    Science, 2014. 345(6199): p. 950-3
    [PMID:25146293]
  3. Pacheco-Escobedo MA, et al.
    Longitudinal zonation pattern in Arabidopsis root tip defined by a multiple structural change algorithm.
    Ann. Bot., 2018.
    [PMID:27358290]
  4. 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]