Basic Information
Locus ID:
Oco04G006610
Species & Taxonomic ID:
Oryza coarctata & 77588
Genome Assembly:
GCA_030770085.1
Description:
RING-type E3 ubiquitin transferase
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| LG04 | 6131576 | 6135354 | + | Oco04G006610 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 7.11 | 77,982.01 Da | 47.51 | 103.14 | 0.08 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd16664 | RING-Ubox_PUB | 299 | 341 | 4.76069E-22 | - |
| Pfam | PF00514 | Armadillo/beta-catenin-like repeat | 430 | 467 | 4.6E-7 | IPR000225 |
| Pfam | PF04564 | U-box domain | 295 | 362 | 4.3E-16 | IPR003613 |
| SUPERFAMILY | SSF57850 | RING/U-box | 284 | 365 | 6.62E-26 | - |
| SUPERFAMILY | SSF48371 | ARM repeat | 399 | 676 | 3.65E-35 | IPR016024 |
| Gene3D | G3DSA:1.25.10.10 | - | 376 | 699 | 2.4E-35 | IPR011989 |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 294 | 366 | 2.9E-25 | IPR013083 |
| SMART | SM00504 | Ubox_2 | 298 | 361 | 1.2E-26 | IPR003613 |
| SMART | SM00185 | arm_5 | 593 | 634 | 170.0 | IPR000225 |
| SMART | SM00185 | arm_5 | 513 | 553 | 2.5 | IPR000225 |
| SMART | SM00185 | arm_5 | 471 | 511 | 110.0 | IPR000225 |
| SMART | SM00185 | arm_5 | 428 | 468 | 3.6E-4 | IPR000225 |
| SMART | SM00185 | arm_5 | 554 | 592 | 37.0 | IPR000225 |
| ProSiteProfiles | PS50176 | Armadillo/plakoglobin ARM repeat profile. | 439 | 481 | 8.9424 | IPR000225 |
| ProSiteProfiles | PS51698 | U-box domain profile. | 294 | 368 | 35.163425 | IPR003613 |
| Coils | Coil | Coil | 221 | 241 | - | - |
Gene Ontology
Biological Process:
Molecular Function:
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT1G29340.1 | plant U-box 17. Encodes a protein containing a UND, a U-box, and an ARM domain. This protein has E3 ubiquitin ligase activity. It is required for cell death and full resistance specified by Arabidopsis RPM1 and RPS4 resistance proteins against Pseudomonas syringae pv tomato. | 0 |
| RefSeq | NP_001396843.1 | U-box domain-containing protein 4 [Oryza sativa Japonica Group] | 0 |
| Q6EUK7 | U-box domain-containing protein 4 OS=Oryza sativa subsp. japonica OX=39947 GN=PUB4 PE=2 SV=1 | 0 | |
| TrEMBL | A0A6G1FAV2 | RING-type E3 ubiquitin transferase OS=Oryza meyeriana var. granulata OX=110450 GN=E2562_021048 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 | 3 | jg20666, jg22182, jg38724 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_483 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah016913 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg40341, Sbi_jg50335 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg1926 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00011505 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl45575, Sgl50357 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000012138, gene:ENSEOMG00000031791 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.8AG0007540, CQ.Regalona.r1.8BG0007670 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30071840 |
| Arecaceae | Cocos nucifera | 3 | COCNU_02G002020, COCNU_03G013960, COCNU_03G013970 |
| Arecaceae | Phoenix dactylifera | 2 | gene-LOC103707357, gene-LOC103710273 |
| Asparagaceae | Asparagus officinalis | 3 | AsparagusV1_01.3468.V1.1, AsparagusV1_05.956.V1.1 ... |
| Asteraceae | Flaveria trinervia | 1 | Ftri15G16248 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT1G29340.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10006853m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp1g25290.v2.2 |
| Brassicaceae | Brassica nigra | 3 | BniB01g010010.2N, BniB03g016630.2N, BniB03g033720.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq04G0513 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl04G0615 |
| Cymodoceaceae | Cymodocea nodosa | 2 | gene.Cymno06g04330, gene.Cymno11g09350 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate02g36160 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 1 | nbisL1-mrna-3422 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG12.772 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00005538 |
| Poaceae | Echinochloa crus-galli | 2 | AH07.968, BH07.1084 |
| Poaceae | Eleusine coracana subsp. coracana | 1 | gene-QOZ80_2AG0107260 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.6HG0581440.1.CDS1 |
| Poaceae | Lolium multiflorum | 2 | gene-QYE76_021847, gene-QYE76_046694 |
| Poaceae | Oryza coarctata | 2 | Oco03G006390, Oco04G006610 |
| Poaceae | Oryza sativa | 1 | LOC_Os02g13960.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_04G098500 |
| Poaceae | Puccinellia tenuiflora | 1 | Pt_Chr0206391 |
| Poaceae | Sporobolus alterniflorus | 3 | Chr06G032180, Chr0G013970, Chr15G023610 |
| Poaceae | Thinopyrum elongatum | 1 | Tel6E01G371800 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC6AG028070, gene_TRIDC6BG034360 |
| Poaceae | Triticum aestivum | 3 | TraesCS6A02G190700.1.cds1, TraesCS6B02G222200.1.cds1 ... |
| Poaceae | Zea mays | 2 | Zm00001eb204890_P001, Zm00001eb239050_P001 |
| Poaceae | Zoysia japonica | 2 | nbis-gene-34234, nbis-gene-53111 |
| Poaceae | Zoysia macrostachya | 2 | Zma_g12487, Zma_g15421 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG18.209, evm.TU.LG26.858 |
| Posidoniaceae | Posidonia oceanica | 2 | gene.Posoc03g17710, gene.Posoc08g02420 |
| Rhizophoraceae | Bruguiera sexangula | 2 | evm.TU.Scaffold_12_RagTag.659, evm.TU.Scaffold_13_RagTag.270 |
| Rhizophoraceae | Carallia pectinifolia | 2 | nbisL1-mrna-24079, nbisL1-mrna-30728 |
| Rhizophoraceae | Ceriops tagal | 2 | nbisL1-mrna-2725, nbisL1-mrna-8039 |
| Rhizophoraceae | Ceriops zippeliana | 2 | nbisL1-mrna-19804, nbisL1-mrna-20945 |
| Rhizophoraceae | Kandelia candel | 2 | add.evm.TU.utg000015l.63, add.evm.TU.utg000027l.91 |
| Rhizophoraceae | Kandelia obovata | 2 | Maker00015217, Maker00017829 |
| Rhizophoraceae | Rhizophora apiculata | 2 | nbisL1-mrna-19046, nbisL1-mrna-19115 |
| Rhizophoraceae | Rhizophora mangle | 2 | nbisL1-mrna-16858, nbisL1-mrna-19127 |
| Salicaceae | Populus euphratica | 3 | populus_peu04474, populus_peu09899, populus_peu17989 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132621349 |
| Solanaceae | Solanum chilense | 1 | SOLCI005160300 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107011628 |
| Tamaricaceae | Reaumuria soongarica | 1 | STRG.26721_chr04_- |
| Tamaricaceae | Tamarix chinensis | 2 | TC06G0985, TC08G0386 |
| Zosteraceae | Zostera marina | 2 | Zosma01g02480.v3.1, Zosma06g00070.v3.1 |