Basic Information
Locus ID:
BniB03g011220.2N
Species & Taxonomic ID:
Brassica nigra & 3710
Genome Assembly:
N100
Description:
Anaphase-promoting complex subunit 4 WD40 domain
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| B3 | 4613643 | 4615430 | - | BniB03g011220.2N |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 5.84 | 34,263.26 Da | 36.47 | 85.05 | -0.11 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd00200 | WD40 | 13 | 319 | 3.90986E-68 | - |
| Pfam | PF00400 | WD domain, G-beta repeat | 278 | 319 | 0.15 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 52 | 88 | 0.027 | IPR001680 |
| Pfam | PF12894 | Anaphase-promoting complex subunit 4 WD40 domain | 155 | 206 | 8.4E-7 | IPR024977 |
| Pfam | PF00400 | WD domain, G-beta repeat | 235 | 271 | 1.6E-7 | IPR001680 |
| SUPERFAMILY | SSF50978 | WD40 repeat-like | 9 | 320 | 1.4E-68 | IPR036322 |
| Gene3D | G3DSA:2.130.10.10 | - | 5 | 321 | 6.0E-89 | IPR015943 |
| SMART | SM00320 | WD40_4 | 189 | 229 | 3.3E-8 | IPR001680 |
| SMART | SM00320 | WD40_4 | 148 | 186 | 5.2E-6 | IPR001680 |
| SMART | SM00320 | WD40_4 | 274 | 319 | 1.7E-4 | IPR001680 |
| SMART | SM00320 | WD40_4 | 2 | 46 | 0.014 | IPR001680 |
| SMART | SM00320 | WD40_4 | 49 | 88 | 0.0015 | IPR001680 |
| SMART | SM00320 | WD40_4 | 232 | 271 | 1.3E-10 | IPR001680 |
| SMART | SM00320 | WD40_4 | 91 | 131 | 0.02 | IPR001680 |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 281 | 321 | 8.729241 | - |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 281 | 321 | 8.703868 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 154 | 195 | 10.541869 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 239 | 280 | 17.292345 | IPR001680 |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 239 | 273 | 13.527399 | - |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 56 | 97 | 10.374778 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 196 | 238 | 9.472486 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 10 | 55 | 10.475033 | IPR001680 |
| ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 258 | 272 | - | IPR019775 |
| PRINTS | PR00320 | G protein beta WD-40 repeat signature | 33 | 47 | 1.6E-6 | IPR020472 |
| PRINTS | PR00320 | G protein beta WD-40 repeat signature | 306 | 320 | 1.6E-6 | IPR020472 |
| PRINTS | PR00320 | G protein beta WD-40 repeat signature | 258 | 272 | 1.6E-6 | IPR020472 |
Gene Ontology
Molecular Function:
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT4G29830.1 | Transducin/WD40 repeat-like superfamily protein. The protein is composed of repeats of WD motif which is involved in protein complex formation. The gene is involved in flower timing and flower development. This gene is predicted to encode a protein with a DWD motif. It can bind to DDB1a in Y2H assays, and DDB1b in co-IP assays, and may be involved in the formation of a CUL4-based E3 ubiquitin ligase. Loss of gene function leads to a redistribution of H3K4me3 and K3K36me2 modifications within genes but not a change in the overall abundance of these modifications within chromatin. | 0 |
| RefSeq | XP_048606458.1 | WD repeat-containing protein VIP3-like [Brassica napus] | 0 |
| Q9SZQ5 | WD repeat-containing protein VIP3 OS=Arabidopsis thaliana OX=3702 GN=VIP3 PE=1 SV=1 | 0 | |
| TrEMBL | A0A3P6BEU3 | ANAPC4_WD40 domain-containing protein OS=Brassica oleracea OX=3712 GN=BOLC3T21221H 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 | jg32892 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_25173 |
| Amaranthaceae | Atriplex hortensis | 2 | Ah037057, Ah037058 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_2g042780 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg30160, Sbi_jg43604 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg18298 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00004059 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl66047, Sgl70364 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000019882, gene:ENSEOMG00000034265 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.1AG0018430, CQ.Regalona.r1.1BG0003980 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30259750 |
| Apiaceae | Apium graveolens | 1 | AgUnG01343 |
| Arecaceae | Cocos nucifera | 3 | COCNU_01G000600, COCNU_04G010020, COCNU_14G007390 |
| Arecaceae | Phoenix dactylifera | 1 | gene-LOC103723722 |
| Asparagaceae | Asparagus officinalis | 1 | AsparagusV1_07.2088.V1.1 |
| Asteraceae | Flaveria trinervia | 1 | Ftri14G20638 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT4G29830.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10027356m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp7g27640.v2.2 |
| Brassicaceae | Brassica nigra | 2 | BniB03g011220.2N, BniB05g007880.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq06G0821 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl06G0845 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno05g09450 |
| Dunaliellaceae | Dunaliella salina | 5 | Dusal.0051s00019.v1.0, Dusal.0103s00026.v1.0 ... |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate04g30150 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG07.1279 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00039599 |
| Poaceae | Echinochloa crus-galli | 3 | AH04.2120, BH04.2203, CH04.2537 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_9AG0691780, gene-QOZ80_9BG0709270 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.4HG0363150.1 |
| Poaceae | Lolium multiflorum | 1 | gene-QYE76_065660 |
| Poaceae | Oryza coarctata | 2 | Oco21G009380, Oco22G010780 |
| Poaceae | Oryza sativa | 1 | LOC_Os11g43890.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_05G231600 |
| Poaceae | Puccinellia tenuiflora | 1 | Pt_Chr0103410 |
| Poaceae | Sporobolus alterniflorus | 2 | Chr07G014610, Chr31G008020 |
| Poaceae | Thinopyrum elongatum | 1 | Tel4E01G230500 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC4AG026360, gene_TRIDC4BG024920 |
| Poaceae | Triticum aestivum | 3 | TraesCS4A02G165700.1, TraesCS4B02G144300.1 ... |
| Poaceae | Zea mays | 1 | Zm00001eb165440_P001 |
| Poaceae | Zoysia japonica | 3 | nbis-gene-37626, nbis-gene-37627, nbis-gene-46011 |
| Poaceae | Zoysia macrostachya | 4 | Zma_g18256, Zma_g18257, Zma_g18267, Zma_g19125 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG03.2518, evm.TU.LG17.1561 |
| Posidoniaceae | Posidonia oceanica | 2 | gene.Posoc01g20940, gene.Posoc05g10640 |
| Rhizophoraceae | Bruguiera sexangula | 2 | evm.TU.60383.4, evm.TU.60384.4 |
| Rhizophoraceae | Carallia pectinifolia | 1 | nbisL1-mrna-12976 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-12790 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-16932 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000033l.381 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00014747 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-4001 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-8161 |
| Salicaceae | Populus euphratica | 1 | populus_peu11887 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132636898 |
| Solanaceae | Solanum chilense | 1 | SOLCI006027900 |
| Solanaceae | Solanum pennellii | 2 | gene-LOC107005340, gene-LOC107023996 |
| Tamaricaceae | Reaumuria soongarica | 2 | STRG.5088_chr03_+, gene_18202 |
| Tamaricaceae | Tamarix chinensis | 1 | TC02G0490 |
| Zosteraceae | Zostera marina | 1 | Zosma03g19170.v3.1 |