Basic Information
Locus ID:
nbisL1-mrna-2905
Species & Taxonomic ID:
Ceriops zippeliana & 413951
Genome Assembly:
GCA_037897445.1
Description:
Required for maturation of ribosomal RNAs and formation of the large ribosomal subunit
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| 000060F_pilon | 5945570 | 5950899 | + | nbisL1-mrna-2905 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 5.36 | 48,067.92 Da | 36.76 | 86.50 | -0.20 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd00200 | WD40 | 110 | 425 | 1.57795E-52 | - |
| Pfam | PF00400 | WD domain, G-beta repeat | 143 | 183 | 0.0039 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 264 | 300 | 1.8E-4 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 200 | 233 | 1.9E-6 | IPR001680 |
| Pfam | PF08154 | NLE (NUC135) domain | 13 | 80 | 2.3E-20 | IPR012972 |
| Pfam | PF00400 | WD domain, G-beta repeat | 351 | 388 | 0.0077 | IPR001680 |
| SUPERFAMILY | SSF50978 | WD40 repeat-like | 104 | 427 | 1.67E-52 | IPR036322 |
| Gene3D | G3DSA:2.130.10.10 | - | 103 | 434 | 5.0E-70 | IPR015943 |
| SMART | SM00320 | WD40_4 | 391 | 429 | 1.1 | IPR001680 |
| SMART | SM00320 | WD40_4 | 100 | 138 | 0.63 | IPR001680 |
| SMART | SM00320 | WD40_4 | 195 | 234 | 2.5E-6 | IPR001680 |
| SMART | SM00320 | WD40_4 | 348 | 388 | 3.0E-7 | IPR001680 |
| SMART | SM00320 | WD40_4 | 140 | 183 | 0.064 | IPR001680 |
| SMART | SM00320 | WD40_4 | 262 | 300 | 7.5E-6 | IPR001680 |
| SMART | SM00320 | WD40_4 | 303 | 342 | 6.1 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 355 | 391 | 10.775796 | IPR001680 |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 202 | 236 | 10.996502 | - |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 355 | 391 | 9.045603 | - |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 269 | 309 | 11.611251 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 202 | 243 | 13.783434 | IPR001680 |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 269 | 305 | 9.019239 | - |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 147 | 192 | 10.34136 | IPR001680 |
| ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 375 | 389 | - | IPR019775 |
| PRINTS | PR00320 | G protein beta WD-40 repeat signature | 170 | 184 | 1.9E-6 | IPR020472 |
| PRINTS | PR00320 | G protein beta WD-40 repeat signature | 375 | 389 | 1.9E-6 | IPR020472 |
| PRINTS | PR00320 | G protein beta WD-40 repeat signature | 221 | 235 | 1.9E-6 | IPR020472 |
| Hamap | MF_03029 | Ribosome biogenesis protein @gn(WDR12) [WDR12]. | 7 | 432 | 30.949097 | IPR028599 |
Gene Ontology
Biological Process:
Molecular Function:
KEGG Pathway
KO Term:
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT5G15550.1 | Transducin/WD40 repeat-like superfamily protein. | 0 |
| RefSeq | XP_021605511.2 | ribosome biogenesis protein WDR12 homolog [Manihot esculenta] | 0 |
| Q9LF27 | Ribosome biogenesis protein WDR12 homolog OS=Arabidopsis thaliana OX=3702 GN=WDR12 PE=1 SV=1 | 0 | |
| TrEMBL | A0A2P2KPV0 | Ribosome biogenesis protein WDR12 homolog OS=Rhizophora mucronata OX=61149 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 | 1 | jg30563 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_14585 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah033568 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg51064, Sbi_jg60138 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg24317 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00015835 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl78419, Sgl80928 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000018781, gene:ENSEOMG00000039770 ... |
| Amaranthaceae | Chenopodium quinoa | 3 | CQ.Regalona.r1.9AG0004050, CQ.Regalona.r1.9AG0004060 ... |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30192970 |
| Apiaceae | Apium graveolens | 2 | Ag4G00955, Ag5G00955 |
| Arecaceae | Cocos nucifera | 3 | COCNU_05G001960, COCNU_13G005680, scaffold018987G000010 |
| Arecaceae | Phoenix dactylifera | 2 | gene-LOC103708248, gene-LOC103710242 |
| Asparagaceae | Asparagus officinalis | 3 | AsparagusV1_03.2073.V1.1, AsparagusV1_03.2074.V1.1 ... |
| Asteraceae | Flaveria trinervia | 1 | Ftri18G32960 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT5G15550.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10013619m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp6g28530.v2.2 |
| Brassicaceae | Brassica nigra | 3 | BniB02g047340.2N, BniB05g023180.2N, BniB08g007450.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq08G0430 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl08G0383 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno01g09480 |
| Dunaliellaceae | Dunaliella salina | 1 | Dusal.0179s00021.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate05g01080 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG02.285 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00028053 |
| Plumbaginaceae | Limonium bicolor | 1 | Lb3G18482 |
| Poaceae | Echinochloa crus-galli | 5 | AH03.3616, AH06.2319, AH07.2940, BH03.3950, CH03.4060 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_5AG0396340, gene-QOZ80_5BG0444630 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.2HG0127540.1 |
| Poaceae | Lolium multiflorum | 1 | gene-QYE76_039888 |
| Poaceae | Oryza coarctata | 2 | Oco13G011880, Oco14G012680 |
| Poaceae | Oryza sativa | 1 | LOC_Os07g40930.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_02G340900 |
| Poaceae | Puccinellia tenuiflora | 2 | Pt_Chr0205994, Pt_Chr0307527 |
| Poaceae | Sporobolus alterniflorus | 4 | Chr01G035580, Chr04G012410, Chr07G011830, Chr12G003990 |
| Poaceae | Thinopyrum elongatum | 3 | Tel2E01G346000, Tel2E01G616200, Tel7E01G537300 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC2AG022730, gene_TRIDC2BG026650 |
| Poaceae | Triticum aestivum | 3 | TraesCS2A02G177700.1, TraesCS2B02G204800.1 ... |
| Poaceae | Zea mays | 1 | Zm00001eb326820_P001 |
| Poaceae | Zoysia japonica | 3 | nbis-gene-27820, nbis-gene-32873, nbis-gene-57074 |
| Poaceae | Zoysia macrostachya | 1 | Zma_g5506 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG05.1376, evm.TU.LG07.1498 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc03g19950 |
| Rhizophoraceae | Bruguiera sexangula | 2 | evm.TU.Scaffold_3_RagTag.1712, evm.TU.Scaffold_6_RagTag.356 |
| Rhizophoraceae | Carallia pectinifolia | 2 | nbisL1-mrna-2025, nbisL1-mrna-2166 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-10591 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-2905 |
| Rhizophoraceae | Kandelia candel | 2 | add.evm.TU.utg000023l.135, evm.TU.utg000019l.198 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00002165 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-12174 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-18222 |
| Salicaceae | Populus euphratica | 3 | populus_peu09341, populus_peu25183, populus_peu37959 |
| Solanaceae | Lycium barbarum | 2 | gene-LOC132599276, gene-LOC132623186 |
| Solanaceae | Solanum chilense | 2 | SOLCI005080000, SOLCI007044900 |
| Solanaceae | Solanum pennellii | 2 | gene-LOC107009695, gene-LOC107012676 |
| Tamaricaceae | Reaumuria soongarica | 1 | STRG.11856_chr02_- |
| Tamaricaceae | Tamarix chinensis | 1 | TC02G1578 |
| Zosteraceae | Zostera marina | 1 | Zosma04g06050.v3.1 |