Basic Information
Locus ID:
Oco05G003130
Species & Taxonomic ID:
Oryza coarctata & 77588
Genome Assembly:
GCA_030770085.1
Short Name:
WDR3
Description:
WD40 repeats
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| LG05 | 2918644 | 2924063 | + | Oco05G003130 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 6.34 | 103,905.00 Da | 43.44 | 87.55 | -0.26 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd00200 | WD40 | 392 | 688 | 8.12048E-57 | - |
| CDD | cd00200 | WD40 | 102 | 509 | 4.3376E-40 | - |
| Pfam | PF04003 | Dip2/Utp12 Family | 790 | 891 | 2.3E-19 | IPR007148 |
| Pfam | PF00400 | WD domain, G-beta repeat | 100 | 138 | 8.2E-5 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 571 | 603 | 1.8E-5 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 147 | 180 | 2.0E-5 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 185 | 221 | 1.0E-4 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 610 | 646 | 0.23 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 390 | 421 | 0.11 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 62 | 96 | 0.0039 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 651 | 688 | 1.7E-5 | IPR001680 |
| SUPERFAMILY | SSF50978 | WD40 repeat-like | 343 | 690 | 1.01E-60 | IPR036322 |
| SUPERFAMILY | SSF50978 | WD40 repeat-like | 22 | 365 | 5.04E-49 | IPR036322 |
| Gene3D | G3DSA:2.130.10.10 | - | 567 | 777 | 1.2E-37 | IPR015943 |
| Gene3D | G3DSA:2.130.10.10 | - | 16 | 145 | 2.1E-22 | IPR015943 |
| Gene3D | G3DSA:2.130.10.10 | - | 333 | 566 | 8.4E-31 | IPR015943 |
| Gene3D | G3DSA:2.130.10.10 | - | 146 | 314 | 3.6E-26 | IPR015943 |
| SMART | SM00320 | WD40_4 | 183 | 222 | 3.2E-6 | IPR001680 |
| SMART | SM00320 | WD40_4 | 464 | 509 | 0.0034 | IPR001680 |
| SMART | SM00320 | WD40_4 | 99 | 138 | 3.6E-8 | IPR001680 |
| SMART | SM00320 | WD40_4 | 332 | 376 | 340.0 | IPR001680 |
| SMART | SM00320 | WD40_4 | 565 | 604 | 3.2E-7 | IPR001680 |
| SMART | SM00320 | WD40_4 | 383 | 421 | 0.02 | IPR001680 |
| SMART | SM00320 | WD40_4 | 52 | 96 | 3.0 | IPR001680 |
| SMART | SM00320 | WD40_4 | 649 | 688 | 6.8E-8 | IPR001680 |
| SMART | SM00320 | WD40_4 | 7 | 45 | 300.0 | IPR001680 |
| SMART | SM00320 | WD40_4 | 524 | 562 | 0.041 | IPR001680 |
| SMART | SM00320 | WD40_4 | 141 | 180 | 4.4E-7 | IPR001680 |
| SMART | SM00320 | WD40_4 | 424 | 461 | 6.0 | IPR001680 |
| SMART | SM00320 | WD40_4 | 607 | 646 | 1.5E-5 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 614 | 655 | 12.112524 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 190 | 231 | 11.07656 | IPR001680 |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 190 | 224 | 8.729241 | - |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 614 | 646 | 9.625601 | - |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 656 | 688 | 12.413288 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 471 | 518 | 9.104886 | IPR001680 |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 656 | 688 | 10.337415 | - |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 572 | 603 | 10.917412 | - |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 106 | 139 | 13.282162 | IPR001680 |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 148 | 183 | 11.81377 | - |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 572 | 613 | 13.415834 | IPR001680 |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 106 | 139 | 11.022865 | - |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 83 | 105 | 10.040596 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 148 | 189 | 14.886235 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 390 | 430 | 10.107432 | IPR001680 |
| ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 125 | 139 | - | IPR019775 |
| ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 167 | 181 | - | IPR019775 |
| PRINTS | PR00320 | G protein beta WD-40 repeat signature | 167 | 181 | 8.6E-6 | IPR020472 |
| PRINTS | PR00320 | G protein beta WD-40 repeat signature | 83 | 97 | 8.6E-6 | IPR020472 |
| PRINTS | PR00320 | G protein beta WD-40 repeat signature | 591 | 605 | 8.6E-6 | IPR020472 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 911 | 939 | - | - |
| Coils | Coil | Coil | 746 | 773 | - | - |
Gene Ontology
Molecular Function:
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT3G21540.1 | transducin family protein / WD-40 repeat family protein. | 0 |
| RefSeq | XP_052148531.1 | uncharacterized protein LOC127767290 [Oryza glaberrima] | 0 |
| Q8BHB4 | WD repeat-containing protein 3 OS=Mus musculus OX=10090 GN=Wdr3 PE=1 SV=1 | 0 | |
| TrEMBL | A0A0D3FDX2 | Utp12 domain-containing protein OS=Oryza barthii OX=65489 PE=4 SV=1 | 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 | 1 | jg3518 |
| Aizoaceae | Mesembryanthemum crystallinum | 2 | gene_1104, gene_20182 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah030622 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg27200, Sbi_jg33331 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg8035 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00005714 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl71296, Sgl74891 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000008406, gene:ENSEOMG00000038751 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.7AG0018460, CQ.Regalona.r1.7BG0021050 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30273730 |
| Apiaceae | Apium graveolens | 1 | Ag10G01989 |
| Arecaceae | Cocos nucifera | 1 | COCNU_07G010480 |
| Arecaceae | Phoenix dactylifera | 1 | gene-LOC103695733 |
| Asparagaceae | Asparagus officinalis | 1 | AsparagusV1_09.990.V1.1 |
| Asteraceae | Flaveria trinervia | 1 | Ftri16G33505 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT3G21540.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10024329m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp7g13750.v2.2 |
| Brassicaceae | Brassica nigra | 1 | BniB05g020710.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq02G1562 |
| Casuarinaceae | Casuarina glauca | 2 | Cgl02G1614, Cgl02G1630 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno11g06070 |
| Dunaliellaceae | Dunaliella salina | 1 | Dusal.0249s00016.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate06g17820 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 1 | nbisL1-mrna-5980 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG01.1549 |
| Plantaginaceae | Plantago ovata | 2 | Pov_00005009, Pov_00025481 |
| Plumbaginaceae | Limonium bicolor | 1 | Lb4G24696 |
| Poaceae | Echinochloa crus-galli | 2 | BH01.4884, CH01.5486 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_3AG0234020, gene-QOZ80_3BG0293970 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.4HG0411240.1 |
| Poaceae | Lolium multiflorum | 2 | gene-QYE76_070696, gene-QYE76_070719 |
| Poaceae | Oryza coarctata | 2 | Oco05G003130, Oco06G003140 |
| Poaceae | Oryza sativa | 1 | LOC_Os03g05720.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_01G478200 |
| Poaceae | Puccinellia tenuiflora | 2 | Pt_Chr0100050, Pt_Chr0100071 |
| Poaceae | Sporobolus alterniflorus | 2 | Chr01G037100, Chr12G002370 |
| Poaceae | Thinopyrum elongatum | 1 | Tel4E01G524700 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC4AG055020, gene_TRIDC4BG053610 |
| Poaceae | Triticum aestivum | 2 | TraesCS4A02G370000.1, TraesCS4B02G317800.1 |
| Poaceae | Zea mays | 1 | Zm00001eb004160_P003 |
| Poaceae | Zoysia japonica | 1 | nbis-gene-4475 |
| Poaceae | Zoysia macrostachya | 1 | Zma_g4408 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG06.1659, evm.TU.LG11.1012 |
| Posidoniaceae | Posidonia oceanica | 2 | gene.Posoc08g08170, gene.Posoc08g08180 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_2_RagTag.918 |
| Rhizophoraceae | Carallia pectinifolia | 1 | nbisL1-mrna-4286 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-15957 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-10025 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000009l.907 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00005094 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-12605 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-5818 |
| Salicaceae | Populus euphratica | 1 | populus_peu11629 |
| Solanaceae | Lycium barbarum | 2 | gene-LOC132629973, gene-LOC132630654 |
| Solanaceae | Solanum chilense | 1 | SOLCI003887000 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107002644 |
| Tamaricaceae | Reaumuria soongarica | 1 | gene_5583 |
| Tamaricaceae | Tamarix chinensis | 1 | TC02G1968 |
| Zosteraceae | Zostera marina | 1 | Zosma05g33080.v3.1 |