Basic Information
Locus ID:
nbisL1-mrna-12935
Species & Taxonomic ID:
Rhizophora apiculata & 106626
Genome Assembly:
GCA_037832385.1
Description:
WD repeat-containing protein
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr5 | 7024950 | 7035420 | + | nbisL1-mrna-12935 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 7.99 | 98,391.37 Da | 41.82 | 84.70 | -0.32 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd00200 | WD40 | 163 | 494 | 6.93272E-53 | - |
| CDD | cd17041 | Ubl_WDR48 | 763 | 888 | 3.93745E-37 | - |
| Pfam | PF00400 | WD domain, G-beta repeat | 204 | 240 | 0.13 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 381 | 417 | 2.8E-5 | IPR001680 |
| Pfam | PF11816 | Domain of unknown function (DUF3337) | 742 | 888 | 5.0E-28 | IPR021772 |
| Pfam | PF00400 | WD domain, G-beta repeat | 344 | 375 | 0.0019 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 245 | 284 | 0.0035 | IPR001680 |
| SUPERFAMILY | SSF50978 | WD40 repeat-like | 162 | 580 | 3.43E-63 | IPR036322 |
| Gene3D | G3DSA:2.130.10.10 | - | 343 | 604 | 2.7E-40 | IPR015943 |
| Gene3D | G3DSA:2.130.10.10 | - | 143 | 342 | 4.0E-24 | IPR015943 |
| SMART | SM00320 | WD40_4 | 537 | 575 | 490.0 | IPR001680 |
| SMART | SM00320 | WD40_4 | 244 | 284 | 3.5E-6 | IPR001680 |
| SMART | SM00320 | WD40_4 | 420 | 459 | 0.0019 | IPR001680 |
| SMART | SM00320 | WD40_4 | 336 | 375 | 0.0011 | IPR001680 |
| SMART | SM00320 | WD40_4 | 202 | 240 | 1.9E-4 | IPR001680 |
| SMART | SM00320 | WD40_4 | 148 | 197 | 0.8 | IPR001680 |
| SMART | SM00320 | WD40_4 | 378 | 417 | 2.6E-8 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 343 | 384 | 14.819399 | IPR001680 |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 343 | 375 | 11.471045 | - |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 251 | 286 | 9.138305 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 385 | 426 | 15.454345 | IPR001680 |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 385 | 418 | 12.130133 | - |
| ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 404 | 418 | - | IPR019775 |
| PRINTS | PR00320 | G protein beta WD-40 repeat signature | 227 | 241 | 3.1E-5 | IPR020472 |
| PRINTS | PR00320 | G protein beta WD-40 repeat signature | 362 | 376 | 3.1E-5 | IPR020472 |
| PRINTS | PR00320 | G protein beta WD-40 repeat signature | 404 | 418 | 3.1E-5 | IPR020472 |
Gene Ontology
Molecular Function:
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT3G05090.1 | Transducin/WD40 repeat-like superfamily protein. Encodes a DCAF protein. Mutants are defective in lateral root development and suggest roles for DDB1Cul4mediated protein degradation in regulating auxin accumulation during lateral root primordium development and lateral root meristem emergence. | 0 |
| RefSeq | XP_012089192.1 | WD repeat-containing protein 48 [Jatropha curcas] | 0 |
| Q05B17 | WD repeat-containing protein 48 OS=Xenopus tropicalis OX=8364 GN=wdr48 PE=2 SV=1 | 0 | |
| TrEMBL | A0A067JI36 | WD_REPEATS_REGION domain-containing protein OS=Jatropha curcas OX=180498 GN=JCGZ_23444 PE=3 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| No sample metadata found. | |||||||
Network
No network data available for this species.
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 2 | jg19691, jg30652 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_10061 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_4g082610 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg16873, Sbi_jg61407 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg167 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00008250 |
| Amaranthaceae | Suaeda glauca | 4 | Sgl24776, Sgl24779, Sgl29923, Sgl29924 |
| Amaranthaceae | Chenopodium album | 5 | gene:ENSEOMG00000009205, gene:ENSEOMG00000030942 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.4AG0009920, CQ.Regalona.r1.4BG0010080 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30091950 |
| Apiaceae | Apium graveolens | 1 | Ag1G00145 |
| Arecaceae | Cocos nucifera | 2 | COCNU_07G012090, COCNU_10G008250 |
| Arecaceae | Phoenix dactylifera | 3 | gene-LOC103696637, gene-LOC103710558, gene-LOC120109777 |
| Asparagaceae | Asparagus officinalis | 2 | AsparagusV1_02.2061.V1.1, AsparagusV1_08.3107.V1.1 |
| Asteraceae | Flaveria trinervia | 2 | Ftri17G08808, Ftri9G06990 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT3G05090.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10020130m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 2 | Sp2g20380.v2.2, Sp3g03910.v2.2 |
| Brassicaceae | Brassica nigra | 2 | BniB01g058470.2N, BniB07g033100.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq06G2332 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl06G2448 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno14g03160 |
| Dunaliellaceae | Dunaliella salina | 1 | Dusal.0521s00016.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate03g07210 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG03.2331 |
| Plantaginaceae | Plantago ovata | 2 | Pov_00023942, Pov_00029263 |
| Plumbaginaceae | Limonium bicolor | 1 | Lb1G01097 |
| Poaceae | Echinochloa crus-galli | 4 | AH05.279, BH05.321, CH05.147, CH05.373 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_5AG0382600, gene-QOZ80_5BG0429490 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.5HG0457370.1 |
| Poaceae | Lolium multiflorum | 1 | gene-QYE76_002839 |
| Poaceae | Oryza coarctata | 2 | Oco23G002490, Oco24G002010 |
| Poaceae | Oryza sativa | 1 | LOC_Os12g06810.1 |
| Poaceae | Paspalum vaginatum | 2 | gene-BS78_08G035800, gene-BS78_K274200 |
| Poaceae | Sporobolus alterniflorus | 4 | Chr04G022780, Chr06G024570, Chr19G012550, Chr27G003380 |
| Poaceae | Thinopyrum elongatum | 1 | Tel5E01G225600 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC5AG020840, gene_TRIDC5BG021650 |
| Poaceae | Triticum aestivum | 3 | TraesCS5A02G122900.2, TraesCS5B02G122700.1 ... |
| Poaceae | Zea mays | 3 | Zm00001eb139400_P003, Zm00001eb333910_P001 ... |
| Poaceae | Zoysia japonica | 1 | nbis-gene-25564 |
| Poaceae | Zoysia macrostachya | 1 | Zma_g24792 |
| Portulacaceae | Portulaca oleracea | 3 | evm.TU.LG16.1231, evm.TU.LG20.1220, evm.TU.LG20.1221 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc06g02090 |
| Rhizophoraceae | Bruguiera sexangula | 2 | evm.TU.Scaffold_1_RagTag.221, evm.TU.Scaffold_2_RagTag.1979 |
| Rhizophoraceae | Carallia pectinifolia | 2 | nbisL1-mrna-3396, nbisL1-mrna-7999 |
| Rhizophoraceae | Ceriops tagal | 2 | nbisL1-mrna-18491, nbisL1-mrna-38 |
| Rhizophoraceae | Ceriops zippeliana | 3 | nbisL1-mrna-13748, nbisL1-mrna-5274, nbisL1-mrna-5275 |
| Rhizophoraceae | Kandelia candel | 2 | evm.TU.utg000009l.103, evm.TU.utg000012l.151 |
| Rhizophoraceae | Kandelia obovata | 2 | Maker00005674, Maker00010920 |
| Rhizophoraceae | Rhizophora apiculata | 2 | nbisL1-mrna-12935, nbisL1-mrna-7809 |
| Rhizophoraceae | Rhizophora mangle | 2 | nbisL1-mrna-16216, nbisL1-mrna-201 |
| Salicaceae | Populus euphratica | 2 | populus_peu13509, populus_peu15845 |
| Solanaceae | Lycium barbarum | 2 | gene-LOC132612343, gene-LOC132645226 |
| Solanaceae | Solanum chilense | 3 | SOLCI005635600, SOLCI005635700, SOLCI006484600 |
| Solanaceae | Solanum pennellii | 2 | gene-LOC107006682, gene-LOC107028575 |
| Tamaricaceae | Reaumuria soongarica | 2 | STRG.32032_chr09_-, gene_12009 |
| Tamaricaceae | Tamarix chinensis | 2 | TC05G2311, TC06G0818 |
| Zosteraceae | Zostera marina | 1 | Zosma01g34730.v3.1 |