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PlnTFDB specifications


Unique identifier OMICS_00561
Name PlnTFDB
Alternative name Plant Transcription Factor Database
Restrictions to use None
Database management system MySQL
Community driven No
User data submission Not allowed
Version 3.0
Maintained Yes


  • Plants and Fungi
    • Arabidopsis thaliana
    • Carica papaya
    • Oryza sativa
    • Populus trichocarpa
    • Vitis vinifera
    • Zea mays


  • person_outline Bernd Mueller-Roeber
  • person_outline Diego Riaño-Pachón
  • person_outline Slobodan Ruzicic

Publications for Plant Transcription Factor Database

PlnTFDB citations


Transcriptome and Co Expression Network Analyses Identify Key Genes Regulating Nitrogen Use Efficiency in Brassica juncea L.

Sci Rep
PMCID: 5945678
PMID: 29748645
DOI: 10.1038/s41598-018-25826-6

[…] was used to annotate the correctly assembled transcripts with an E-value threshold of 10−1 ( To derive transcription factor family related information PlnTFDB database was used ( All the unigenes were searched against this database using BLASTX with an E-value threshold of 10−5. […]


Ginseng Genome Database: an open access platform for genomics of Panax ginseng

BMC Plant Biol
PMCID: 5898050
PMID: 29649979
DOI: 10.1186/s12870-018-1282-9

[…] Transcription factors (TFs) are the key regulators for development and stimulus responses. TFs were identified based on the criteria of PlnTFDB [] using iTAK ( A total of 4439 TF and transcription regulator genes were identified and classified into 94 TF families (http://ginsengdb […]


De novo assembly and analysis of the Artemisia argyi transcriptome and identification of genes involved in terpenoid biosynthesis

Sci Rep
PMCID: 5895812
PMID: 29643397
DOI: 10.1038/s41598-018-24201-9

[…] nt transcription factor database) using Hmmsearch with the default parameters. The abilities of the unigenes to encode proteins were evaluated based on the characteristics of TF families described in PlnTFDB. […]


Genome wide comparative and evolutionary analysis of Calmodulin binding Transcription Activator (CAMTA) family in Gossypium species

Sci Rep
PMCID: 5882909
PMID: 29615731
DOI: 10.1038/s41598-018-23846-w

[…] ject ( and of G. raimondii from Phytozome ( A total of 465 CAMTA domain sequences from 75 plant species were obtained from Plant Transcription Factor Database ( and utilized to construct Hidden Markov Model (HMM) profile. Further, HMM profile of the CAMTA domains (CG-1, TIG domain, Ankyrin […]


Transcriptomic analysis of Perilla frutescens seed to insight into the biosynthesis and metabolic of unsaturated fatty acids

BMC Genomics
PMCID: 5863459
PMID: 29562889
DOI: 10.1186/s12864-018-4595-z

[…] To identify the transcription factors (TFs) represented in Perilla seed transcriptome, all assembled unigenes were searched against plant transcription factor database PlantTFDB ( by BLAST with a cut-off of 1e− 5. Beased on the average of RPKM of genes across RNA-seq library replicates for a condit […]


Transcriptome analysis of embryonic domains in Norway spruce reveals potential regulators of suspensor cell death

PLoS One
PMCID: 5834160
PMID: 29499063
DOI: 10.1371/journal.pone.0192945

[…] somerase activity (, ). Of these enzymes, seven fall into flavonoid biosynthesis pathway [] (), suggesting enhanced ROS scavenging activity maintained in the meristematic cells of the EM [].Using the Plant Transcription Factor Database [] we identified six MYB and MYB-like TFs up-regulated in the EM (). The function of most of these TFs in Arabidopsis was linked to the regulation of flavonoid bios […]


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PlnTFDB institution(s)
Department of Molecular Biology, Institute of Biochemistry and Biology, GoFORSYS, University of Potsdam, Potsdam-Golm, Germany; Colegio de Postgraduados, Mexico; GabiPD Team, Bioinformatics Group, Max Planck Institute of Molecular Plant Physiology, Golm, Germany; Cooperative Research Group, Max Planck Institute of Molecular Plant Physiology, Golm, Germany; FRISYS, Faculty of Biology, University of Freiburg, Freiburg, Germany
PlnTFDB funding source(s)
Supported by Bundesministerium fuer Bildung und Forschung, Germany (GABI-FUTURE grant 0315046, GoFORSYS grant 0313924 and FRISYS grant 0313921); Subdireccion de Investigacion: Lınea 15, Colegio de Postgraduados, Mexico; Deutscher Akademischer Austauschdienst (DAAD).

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