Target gene
The Target Gene Database has been developed based on information and sequence similarity analysis to identify specific groups of target genes.
This database includes genes involved in plant-specific traits such as pigment synthesis, defense mechanisms against diseases, transcription factors, flowering time, and flower development, as well as pathways related to the biosynthesis of specific metabolites.
The database is constructed around structural genes and the regulatory genes that control these pathways.
Based on this foundation, the database helps organize information about genes of interest, making it easier to prioritize candidates for further examination in the interpretation of RNAseq results.
This facilitates a focused approach to studying gene functions and interactions within specific biological processes.
This database includes genes involved in plant-specific traits such as pigment synthesis, defense mechanisms against diseases, transcription factors, flowering time, and flower development, as well as pathways related to the biosynthesis of specific metabolites.
The database is constructed around structural genes and the regulatory genes that control these pathways.
Based on this foundation, the database helps organize information about genes of interest, making it easier to prioritize candidates for further examination in the interpretation of RNAseq results.
This facilitates a focused approach to studying gene functions and interactions within specific biological processes.
Work Flow
| No. | Target gene Target pathway |
Related pathway | No. of genes |
|---|---|---|---|
| 1 | Plant pigments | Chlorophyll metabolic pathway | Carotenoids(Xanthophyll, Lycopene) metabolic pathway | Flavonoids metabolic pathway | Betalains biosynthesis | 310 |
| 2 | Plant transcription factors | MYB | WRKY | ERF | bHLH | ETC | 1,677 |
| 3 | Plant terpenoids | Terpenoid backbone biosynthesis | Monoterpenoid biosynthesis | Diterpenoid biosynthesis | Sesquiterpenoid and triterpenoid biosynthesis | 110 |
| 4 | Plant hormone | ABA biosyntehsis, transport, signaling | auxin biosyntehsis, transport, signaling | brassinodsteroids biosyntehsis, signaling | cytokinins biosyntehsis, signaling | ethylene biosyntehsis, signaling | gibberellins acid biosyntehsis, signaling | jasmonates acid biosyntehsis, signaling | salicylic acid biosyntehsis, signaling, response | 441 |
| 5 | Fatty acids biosynthesis | Cutin_synthesis_1 | Cutin_synthesis_2 | EU_galactolipd,_Sulfolipid | EU_phospholipid | FA_elogation_and_wax | FA_elongtion,_Desaturation | FA_synthesis | Lipid_trafficking | Mit_FA_and_Lipoic_Acid_ | Mit_phospholipid | Oxylipin_metabolism_1 | Oxylipin_metabolism_2 | Phospholipid_signialing | Pro_galactolipd,_Sulfolipid_1 | Pro_galactolipd,_Sulfolipid_2 | sphingolipid_1 | sphingolipid_2 | suberin_synthesis_1 | suberin_synthesis_2 | TAG_biosynthesis | TAGandFA_degradation | 1,066 |
| 6 | Abiotic stress | UV-B | HEAT | OSMOTIC | IRON | ALUMINIUM | WOUNDING | ABA | COLD | DROUGHT | LIGHT | NaCl | OXIDATIVE-STRESS | DEHYDRATION | COLD-DROUGHT-SALT | 3,150 |
| 7 | Biotic stress | Reference Resistance Genes | chitinases | ER-folding | PAMP recognition receptors | MAPK cascade linked to PAMP defense / innate immunity | cell wall reinforcement | calcium transporters | cyclic nucleotide gated channels | ROS breakdown | ROS production | ROS transport to apoplast | Redox signaling | ROS induced genes | Pectin sensing | Response to symbiotic fungus | phenylpropanoid pathway | PR1 regulon | 707 |
| 8 | Photosynthesis | Photosynthesis | Photosynthesis - antenna proteins | Carbon fixation in photosynthetic organisms | 168 |
| 9 | Flowering time | Aging | Ambient temperature | Circadian Clock | Flower development and meristem identity | Flowering time integrator | General | Hormones | Photoperiodism, light perception and signaling | Sugar | Vernalization | General | Flower development and meristem identity | Gibberellins | Hormones | Circadian Clock | Response to cold | Photoperiodism, light perception and signaling | 455 |
| 10 | Flower development | Flower development and meristem identity | 60 |
| 11 | Starch biosynthesis | ADP glucose pyrophosphorylase | Starch synthase | Sucrose synthase | Fructokinase | UDP-sugar pyrophosphorylase | Invertase | NDP kinase | Hexokinase | Phosphoglucoisomerase | Phosphoglucomutase | 40 |
| 12 | ETC. | 250 |
Total of 35
related analysis cases
- Angelica RNAseq analysis of significantly expressed genes related to flower color
- Apple RNAseq analysis of significantly expressed genes related to flowering stages
- Scutellaria RNAseq analysis of target genes
- Tomato RNAseq analysis of significantly expressed genes related to mutations induced by gamma radiation
- Vigna angularis RNAseq analysis of significantly expressed genes under gamma and proton treatments