Basic Information
Locus ID:
Oco13G003570
Species & Taxonomic ID:
Oryza coarctata & 77588
Genome Assembly:
GCA_030770085.1
Description:
WD40 repeats
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| LG13 | 3925552 | 3932401 | + | Oco13G003570 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 6.34 | 29,851.56 Da | 50.36 | 75.87 | -0.14 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd00200 | WD40 | 36 | 265 | 4.65024E-52 | - |
| Pfam | PF00400 | WD domain, G-beta repeat | 201 | 265 | 3.9E-5 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 117 | 154 | 4.0E-7 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 38 | 70 | 1.1E-6 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 76 | 111 | 4.7E-6 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 158 | 196 | 9.6E-7 | IPR001680 |
| SUPERFAMILY | SSF50978 | WD40 repeat-like | 33 | 268 | 5.58E-62 | IPR036322 |
| Gene3D | G3DSA:2.130.10.10 | - | 231 | 271 | 2.7E-5 | IPR015943 |
| Gene3D | G3DSA:2.130.10.10 | - | 22 | 230 | 1.2E-61 | IPR015943 |
| SMART | SM00320 | WD40_4 | 115 | 154 | 8.8E-8 | IPR001680 |
| SMART | SM00320 | WD40_4 | 31 | 70 | 1.1E-8 | IPR001680 |
| SMART | SM00320 | WD40_4 | 230 | 265 | 0.43 | IPR001680 |
| SMART | SM00320 | WD40_4 | 157 | 196 | 1.0E-7 | IPR001680 |
| SMART | SM00320 | WD40_4 | 73 | 112 | 5.6E-7 | IPR001680 |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 243 | 271 | 8.887423 | - |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 38 | 72 | 15.320672 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 122 | 163 | 15.320672 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 80 | 121 | 13.215325 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 164 | 205 | 14.284707 | IPR001680 |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 38 | 72 | 12.631039 | - |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 80 | 111 | 10.390142 | - |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 243 | 271 | 10.575287 | IPR001680 |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 122 | 159 | 11.708317 | - |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 164 | 200 | 11.5765 | - |
| ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 141 | 155 | - | IPR019775 |
| ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 252 | 266 | - | IPR019775 |
| PRINTS | PR00320 | G protein beta WD-40 repeat signature | 141 | 155 | 1.4E-9 | IPR020472 |
| PRINTS | PR00320 | G protein beta WD-40 repeat signature | 57 | 71 | 1.4E-9 | IPR020472 |
| PRINTS | PR00320 | G protein beta WD-40 repeat signature | 252 | 266 | 1.4E-9 | IPR020472 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 26 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 21 | - | - |
Gene Ontology
Molecular Function:
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT5G25150.2 | - | 0 |
| RefSeq | XP_015695333.1 | transcription initiation factor TFIID subunit 5-like isoform X5 [Oryza brachyantha] | 0 |
| Q6S7B0 | Transcription initiation factor TFIID subunit 5 OS=Arabidopsis thaliana OX=3702 GN=TAF5 PE=1 SV=1 | 0 | |
| TrEMBL | Q0D7W2 | Os07g0205200 protein (Fragment) OS=Oryza sativa subsp. japonica OX=39947 GN=Os07g0205200 PE=4 SV=2 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| No sample metadata found. | |||||||
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 2 | jg13432, jg27098 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_23143 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah029048 |
| Amaranthaceae | Salicornia bigelovii | 3 | Sbi_jg29081, Sbi_jg29082, Sbi_jg3301 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg6635 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00000114 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl11470, Sgl16870 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000013266, gene:ENSEOMG00000036237 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.1AG0007940, CQ.Regalona.r1.2BG0021580 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30250890 |
| Apiaceae | Apium graveolens | 1 | Ag10G01055 |
| Arecaceae | Cocos nucifera | 1 | COCNU_11G005360 |
| Arecaceae | Phoenix dactylifera | 1 | gene-LOC103707790 |
| Asparagaceae | Asparagus officinalis | 1 | AsparagusV1_05.3372.V1.1 |
| Asteraceae | Flaveria trinervia | 1 | Ftri14G22993 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT5G25150.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10003767m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp2g22380.v2.2 |
| Brassicaceae | Brassica nigra | 2 | BniB04g003770.2N, BniB07g039910.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq04G2419 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl04G2622 |
| Cymodoceaceae | Cymodocea nodosa | 2 | gene.Cymno01g07040, gene.Cymno06g07690 |
| Dunaliellaceae | Dunaliella salina | 2 | Dusal.0816s00002.v1.0, Dusal.0816s00003.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 2 | gene.Thate01g17620, gene.Thate04g09640 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 1 | nbisL1-mrna-321 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG07.1520 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00020029 |
| Plumbaginaceae | Limonium bicolor | 3 | Lb2G14319, Lb2G14320, Lb7G34568 |
| Poaceae | Echinochloa crus-galli | 4 | AH05.1235, AH06.2467, BH05.1419, CH05.1589 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_6AG0546510, gene-QOZ80_6BG0499880 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.7HG0743140.1 |
| Poaceae | Lolium multiflorum | 1 | gene-QYE76_062843 |
| Poaceae | Oryza coarctata | 4 | Oco11G013980, Oco12G014150, Oco13G003570, Oco14G003960 |
| Poaceae | Oryza sativa | 2 | LOC_Os06g44030.1, LOC_Os07g10520.1 |
| Poaceae | Paspalum vaginatum | 2 | gene-BS78_07G040000, gene-BS78_10G208600 |
| Poaceae | Puccinellia tenuiflora | 5 | Pt_Chr0401514, Pt_Chr0701362, Pt_Chr0701372, Pt_Chr0701399 ... |
| Poaceae | Sporobolus alterniflorus | 6 | Chr02G030980, Chr05G008700, Chr0G000150, Chr0G007670 ... |
| Poaceae | Thinopyrum elongatum | 2 | Tel7E01G791300, Tel7E01G871900 |
| Poaceae | Triticum dicoccoides | 4 | gene_TRIDC5AG047050, gene_TRIDC5BG050880 ... |
| Poaceae | Triticum aestivum | 7 | TraesCS5A02G317800.1, TraesCS5B02G318400.1 ... |
| Poaceae | Zea mays | 3 | Zm00001eb239900_P001, Zm00001eb259920_P001 ... |
| Poaceae | Zoysia japonica | 2 | nbis-gene-40884, nbis-gene-9900 |
| Poaceae | Zoysia macrostachya | 2 | Zma_g30902, Zma_g33155 |
| Portulacaceae | Portulaca oleracea | 3 | evm.TU.LG10.463, evm.TU.LG15.1001, evm.TU.LG17.463 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc03g12860 |
| Rhizophoraceae | Bruguiera sexangula | 2 | evm.TU.Scaffold_10_RagTag.899, evm.TU.Scaffold_4_RagTag.1444 |
| Rhizophoraceae | Carallia pectinifolia | 1 | nbisL1-mrna-22766 |
| Rhizophoraceae | Ceriops tagal | 2 | nbisL1-mrna-16709, nbisL1-mrna-974 |
| Rhizophoraceae | Ceriops zippeliana | 2 | nbisL1-mrna-4285, nbisL1-mrna-9151 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000008l.782 |
| Rhizophoraceae | Kandelia obovata | 2 | Maker00001337, Maker00004227 |
| Rhizophoraceae | Rhizophora apiculata | 3 | nbisL1-mrna-2267, nbisL1-mrna-3736, nbisL1-mrna-3737 |
| Rhizophoraceae | Rhizophora mangle | 2 | nbisL1-mrna-7811, nbisL1-mrna-9711 |
| Salicaceae | Populus euphratica | 2 | populus_peu04695, populus_peu12996 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132643797 |
| Solanaceae | Solanum chilense | 1 | SOLCI006785700 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107023774 |
| Tamaricaceae | Reaumuria soongarica | 1 | gene_13836 |
| Tamaricaceae | Tamarix chinensis | 1 | TC01G3596 |
| Zosteraceae | Zostera marina | 1 | Zosma03g06410.v3.1 |