Basic Information
Locus ID:
nbisL1-mrna-22974
Species & Taxonomic ID:
Rhizophora mangle & 40031
Genome Assembly:
GCA_037832345.1
Description:
U3 small nucleolar RNA-interacting protein
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| 002120F_pilon | 69575 | 73693 | - | nbisL1-mrna-22974 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 6.16 | 57,127.01 Da | 50.88 | 71.28 | -0.70 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd00200 | WD40 | 167 | 488 | 2.00161E-40 | - |
| Pfam | PF00400 | WD domain, G-beta repeat | 353 | 385 | 0.0058 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 268 | 304 | 3.4E-5 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 233 | 262 | 4.3E-5 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 416 | 453 | 0.15 | IPR001680 |
| SUPERFAMILY | SSF50978 | WD40 repeat-like | 166 | 488 | 2.52E-52 | IPR036322 |
| Gene3D | G3DSA:2.130.10.10 | - | 162 | 516 | 6.6E-109 | IPR015943 |
| SMART | SM00320 | WD40_4 | 223 | 262 | 7.4E-6 | IPR001680 |
| SMART | SM00320 | WD40_4 | 307 | 345 | 0.83 | IPR001680 |
| SMART | SM00320 | WD40_4 | 265 | 304 | 5.2E-8 | IPR001680 |
| SMART | SM00320 | WD40_4 | 411 | 454 | 1.3 | IPR001680 |
| SMART | SM00320 | WD40_4 | 162 | 201 | 0.015 | IPR001680 |
| SMART | SM00320 | WD40_4 | 347 | 385 | 0.033 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 272 | 313 | 13.883689 | IPR001680 |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 230 | 265 | 11.128319 | - |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 272 | 304 | 10.759232 | - |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 230 | 271 | 14.552052 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 169 | 206 | 9.639578 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 368 | 394 | 8.804123 | IPR001680 |
| ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 249 | 263 | - | IPR019775 |
| PRINTS | PR00320 | G protein beta WD-40 repeat signature | 372 | 386 | 5.3E-6 | IPR020472 |
| PRINTS | PR00320 | G protein beta WD-40 repeat signature | 291 | 305 | 5.3E-6 | IPR020472 |
| PRINTS | PR00320 | G protein beta WD-40 repeat signature | 249 | 263 | 5.3E-6 | IPR020472 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 94 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 25 | 41 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 42 | 57 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 109 | 128 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 58 | 87 | - | - |
| Coils | Coil | Coil | 96 | 121 | - | - |
Gene Ontology
Molecular Function:
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT4G21130.1 | Transducin/WD40 repeat-like superfamily protein. similar to man and yeast U3-55K genes, involved in processing of pre-ribosomal RNA. | 0 |
| RefSeq | XP_006380373.2 | U3 snoRNP-associated protein-like EMB2271 [Populus trichocarpa] | 0 |
| Q3MKM6 | U3 snoRNP-associated protein-like EMB2271 OS=Arabidopsis thaliana OX=3702 GN=EMB2271 PE=2 SV=1 | 0 | |
| TrEMBL | A0A8T2YC75 | WD_REPEATS_REGION domain-containing protein OS=Populus deltoides OX=3696 GN=H0E87_014074 PE=4 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 | jg38774 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_11220 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah016088 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_4g084190 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg27093, Sbi_jg33449 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg8131 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00020534 |
| Amaranthaceae | Suaeda glauca | 1 | Sgl43935 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000012101, gene:ENSEOMG00000034483 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.8AG0010330, CQ.Regalona.r1.8BG0012890 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30214040 |
| Apiaceae | Apium graveolens | 1 | Ag7G00970 |
| Arecaceae | Cocos nucifera | 2 | COCNU_06G020630, COCNU_14G008790 |
| Arecaceae | Phoenix dactylifera | 2 | gene-LOC103703641, gene-LOC103710502 |
| Asparagaceae | Asparagus officinalis | 1 | AsparagusV1_02.227.V1.1 |
| Asteraceae | Flaveria trinervia | 2 | Ftri11G17805, Ftri5G06660 |
| Brassicaceae | Arabidopsis thaliana | 2 | AT4G05410.1, AT4G21130.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10028589m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp6g03680.v2.2 |
| Brassicaceae | Brassica nigra | 2 | BniB08g038470.2N, BniB08g046630.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq04G1052 |
| Casuarinaceae | Casuarina glauca | 2 | Cgl04G1189, Cgl04G1196 |
| Cymodoceaceae | Cymodocea nodosa | 2 | gene.Cymno15g03230, gene.Cymno17g00090 |
| Dunaliellaceae | Dunaliella salina | 2 | Dusal.0191s00014.v1.0, Dusal.0191s00015.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate09g07830 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 1 | nbisL1-mrna-5329 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG07.60 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00004265 |
| Plumbaginaceae | Limonium bicolor | 1 | Lb4G24833 |
| Poaceae | Echinochloa crus-galli | 4 | AH01.1257, BH01.1468, CH05.2895, CH06.2662 |
| Poaceae | Eleusine coracana subsp. coracana | 4 | gene-QOZ80_3AG0224350, gene-QOZ80_3AG0236250 ... |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.5HG0428990.1 |
| Poaceae | Lolium multiflorum | 1 | gene-QYE76_001026 |
| Poaceae | Oryza coarctata | 2 | Oco05G018830, Oco06G019620 |
| Poaceae | Oryza sativa | 1 | LOC_Os03g42770.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_01G145000 |
| Poaceae | Puccinellia tenuiflora | 2 | Pt_Chr0704427, Pt_Chr0704431 |
| Poaceae | Sporobolus alterniflorus | 4 | Chr01G009440, Chr04G024810, Chr07G023640, Chr12G027580 |
| Poaceae | Thinopyrum elongatum | 1 | Tel5E01G099000 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC5AG006570, gene_TRIDC5BG007670 |
| Poaceae | Triticum aestivum | 2 | TraesCS5A02G043100.1, TraesCS5D02G051600.1 |
| Poaceae | Zea mays | 2 | Zm00001eb050650_P001, Zm00001eb218720_P001 |
| Poaceae | Zoysia japonica | 2 | nbis-gene-20461, nbis-gene-39603 |
| Poaceae | Zoysia macrostachya | 2 | Zma_g3196, Zma_g874 |
| Portulacaceae | Portulaca oleracea | 1 | evm.TU.LG09.1112 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc10g00140 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_14_RagTag.969 |
| Rhizophoraceae | Carallia pectinifolia | 1 | nbisL1-mrna-16815 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-19462 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-17268 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000025l.129 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00012196 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-8634 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-22974 |
| Salicaceae | Populus euphratica | 2 | populus_peu13632, populus_peu22795 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132622025 |
| Solanaceae | Solanum chilense | 1 | SOLCI000504900 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107008853 |
| Tamaricaceae | Reaumuria soongarica | 1 | gene_14391 |
| Tamaricaceae | Tamarix chinensis | 1 | TC01G3900 |
| Zosteraceae | Zostera marina | 1 | Zosma06g12600.v3.1 |