PlantRegMap/PlantTFDB v5.0
Plant Transcription
Factor Database
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Home TFext BLAST Prediction Download Help About Links PlantRegMap |
- The flowchart for construction of PlantTFDB
- Data source
- Data source (TFext)
- Pipeline to construct comprehensive protein dataset
- Family assignment rules
- List of studies which use the Family assignment rules
- Thresholds for domain identification
- Summary of TFs in different taxonomic lineages of green plants and the origination stage of TF families
- Pipeline for parsing BLAST reciprocal best hits (RBHs) and inferring orthologous groups
- Pipeline for GO annotation
- Curation and projection of TF binding motifs
- Transcription factor information
- Multiple sequence alignment
- Phylogenetic trees
- Quick search
- TF prediction server
- Help for PlantRegMap
Data Source (TFext)
Species | Common name | Genome assembly | Gene Anotation | PubMed ID |
Indian licorice | Abrus_2018 (GCA_003935025.1) | NCBI(v100) | - | |
- | ASM278626v1 (GCA_002786265.1) | NCBI | 28902843 | |
Garden asparagus | Aspof.V1 | Phytozome(v1.1) | 29093472 | |
- | v2.0 | Phytozome(v2.1) | 28428306 | |
- | AHAU_CSS_1 (GCA_004153795.1) | NCBI(v100) | 30642496 | |
- | ASM227188v2 (GCA_002271885.2) | NCBI | 30336638 | |
Scotch bonnet | ASM227189v2 (GCA_002271895.2) | NCBI | 29089032 | |
- | Cbr_1.0 (GCA_003427395.1) | NCBI | 30007417 | |
Quinoa | v1.0 | Phytozome(v1.0) | 28178233 | |
- | v5 | Phytozome(v5.2.3.2) | 28484037 | |
- | v1.0 | Kazusa(v1.1) | 30689773 | |
- | ASBRC_Ckan_1.0 (GCA_003546025.1) | NCBI | 30626928 | |
Satsuma orange | CUMW_v1.0 (GCA_002897195.1) | NCBI | 29259619 | |
Arabica coffee | Cara_1.0 (GCA_003713225.1) | NCBI(v100) | - | |
- | Ceug_1.0 (GCA_003713205.1) | NCBI(v100) | - | |
Jute | CCACVL1_1.0 (GCA_001974805.1) | EnsemblPlants(v43) | 28134914 | |
Boston marrow | Cmax_1.0 (GCA_002738345.1) | NCBI(v100) | 28917590 | |
Canada pumpkin | Cmos_1.0 (GCA_002738365.1) | NCBI(v100) | 28917590 | |
Field pumpkin | ASM280686v2 (GCA_002806865.2) | NCBI | 29112324 | |
Artichoke | CcrdV1 (GCA_001531365.1) | NCBI | 26786968 | |
- | ASM160598v2 (GCA_001605985.2) | NCBI(v101) | 28258650 | |
Guinea yam | TDr96_F1_Pseudo_Chromosome_v1.0 (GCA_002240015.2) | EnsemblPlants(v43) | 28927400 | |
Durian | Duzib1.0 (GCA_002303985.1) | NCBI(v100) | 28991254 | |
- | Bedadeti_annotated (GCA_001884845.1) | NCBI | 29896517 | |
- | Himp0.1 (GCA_002762385.1) | NCBI | - | |
- | ASM216827v2 (GCA_002168275.2) | NCBI(v100) | - | |
Para rubber tree | ASM165405v1 (GCA_002003025.1) | NCBI(v100) | 27108962 | |
Japanese morning glory | Asagao_1.1 (GCA_001879475.1) | NCBI(v100) | 27824041 | |
South American air plant | v1.0 | Phytozome(v1.1) | 29196618 | |
Narrow-leaved blue lupine | LupAngTanjil_v1.0 (GCA_001865875.1) | EnsemblPlants(v43) | 27557478 | |
- | MC_HNAU_1.0 (GCA_002174775.1) | NCBI | 28552780 | |
Balsam pear | ASM199503v1 (GCA_900491585.1) | NCBI(v100) | 28028039 | |
- | ASM337056v1 (GCA_003370565.1) | NCBI | - | |
- | NIATTr2 (GCA_001879085.1) | EnsemblPlants(v43) | 28536194 | |
Wild olive | v1.0 | Phytozome(v1.0) | 29078332 | |
- | Oryza_glumaepatula_v1.5 (GCA_000576495.1) | EnsemblPlants(v43) | 29358651 | |
- | Oryza_nivara_v1.0 (GCA_000576065.1) | EnsemblPlants(v43) | 29358651 | |
Opium poppy | ASM357369v1 (GCA_003573695.1) | NCBI(v100) | 30166436 | |
- | PanWU01x14_asm01 (GCA_002914805.1) | NCBI | - | |
Gean | v1.0 | GDR(v1.0.a1) | 28541388 | |
Plum | v1.0 | GDR(v1.0.a1) | 30603097 | |
Granado | ASM220158v1 (GCA_002864125.1) | NCBI | 29271050 | |
Pear | v1.0 | GDR(v1.0) | 24699266 | |
Cork oak | CorkOak1.0 (GCA_002906115.1) | NCBI(v100) | 29786699 | |
China rose | v2.0 | GDR(v2.0) | 29713014 | |
Japanese rose | v1.0 | GDR(v1.0) | 29045613 | |
Black raspberry | v3.0 | GDR(v3.0) | 30107523 | |
Bonfire salvia | SspV1 (GCA_004379255.1) | NCBI | - | |
- | TetSoc1 (GCA_002891735.1) | NCBI | 29294063 | |
- | TorRG33x02_asm01 (GCA_002914845.1) | NCBI | 30175293 | |
- | ASM349008v1 (GCA_003490085.1) | NCBI | 29922311 | |
Wild emmer wheat | WEWSeq_v.1.0 (GCA_002162155.1) | EnsemblPlants(v43) | 28684525 |