Basic Information
Locus ID:
gene-LOC103720767
Species & Taxonomic ID:
Phoenix dactylifera & 42345
Genome Assembly:
GCF_009389715.1
Description:
Ribosomal large subunit pseudouridine synthase B
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr2 | 21007104 | 21017219 | - | gene-LOC103720767 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 9.90 | 44,998.13 Da | 50.55 | 86.39 | -0.39 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd00165 | S4 | 157 | 224 | 4.87699E-11 | IPR002942 |
| Pfam | PF01479 | S4 domain | 157 | 198 | 7.1E-12 | IPR002942 |
| Pfam | PF00849 | RNA pseudouridylate synthase | 220 | 361 | 1.5E-15 | IPR006145 |
| SUPERFAMILY | SSF55174 | Alpha-L RNA-binding motif | 141 | 241 | 7.85E-18 | - |
| SUPERFAMILY | SSF55120 | Pseudouridine synthase | 219 | 399 | 4.64E-32 | IPR020103 |
| Gene3D | G3DSA:3.30.70.1560 | - | 296 | 381 | 5.6E-47 | IPR042092 |
| Gene3D | G3DSA:3.30.70.580 | - | 220 | 399 | 5.6E-47 | IPR020094 |
| Gene3D | G3DSA:3.10.290.10 | - | 153 | 214 | 1.1E-18 | IPR036986 |
| SMART | SM00363 | s4_6 | 157 | 216 | 3.9E-12 | IPR002942 |
| ProSiteProfiles | PS50889 | S4 RNA-binding domain profile. | 157 | 226 | 14.690596 | - |
| ProSitePatterns | PS01149 | Rsu family of pseudouridine synthase signature. | 267 | 281 | - | IPR018496 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 111 | 142 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 125 | 140 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 58 | 77 | - | - |
Gene Ontology
Biological Process:
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT2G39140.1 | pseudouridine synthase family protein. Suppressor of var2 variegation phenotype. Chloroplast localized. Loss of function mutant has defects in chloroplast protein translation and rRNA processing. Similar in sequence to pseudouridine synthase proteins. | 0 |
| RefSeq | XP_008808861.2 | putative ribosomal large subunit pseudouridine synthase SVR1, chloroplastic isoform X1 [Phoenix dactylifera] | 0 |
| Q8L960 | Putative ribosomal large subunit pseudouridine synthase SVR1, chloroplastic OS=Arabidopsis thaliana OX=3702 GN=SVR1 PE=1 SV=1 | 0 | |
| TrEMBL | A0A8B7CY19 | putative ribosomal large subunit pseudouridine synthase SVR1, chloroplastic isoform X1 OS=Phoenix dactylifera OX=42345 GN=LOC103720767 PE=3 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 | jg34362 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_18540 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah025441 |
| Amaranthaceae | Beta vulgaris | 2 | BVRB_4g079150, BVRB_6g142930 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg12892, Sbi_jg52978 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg8879 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00017701 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl32899, Sgl38239 |
| Amaranthaceae | Chenopodium album | 4 | gene:ENSEOMG00000000106, gene:ENSEOMG00000000156 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.6AG0013090, CQ.Regalona.r1.6BG0013840 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30170710 |
| Apiaceae | Apium graveolens | 1 | Ag11G03754 |
| Arecaceae | Cocos nucifera | 1 | COCNU_07G010960 |
| Arecaceae | Phoenix dactylifera | 1 | gene-LOC103720767 |
| Asparagaceae | Asparagus officinalis | 1 | AsparagusV1_10.1564.V1.1 |
| Asteraceae | Flaveria trinervia | 1 | Ftri17G33780 |
| Brassicaceae | Arabidopsis thaliana | 2 | AT2G39140.1, AT3G43340.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10016747m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp4g21490.v2.2 |
| Brassicaceae | Brassica nigra | 1 | BniB06g005590.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq02G0563 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno14g04220 |
| Dunaliellaceae | Dunaliella salina | 2 | Dusal.0459s00006.v1.0, Dusal.0755s00004.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate01g06860 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG02.1085 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00035041 |
| Plumbaginaceae | Limonium bicolor | 1 | Lb1G05292 |
| Poaceae | Echinochloa crus-galli | 3 | AH01.4939, BH01.4875, BH01.5123 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_3AG0234110, gene-QOZ80_3BG0293890 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.4HG0400870.1 |
| Poaceae | Lolium multiflorum | 1 | gene-QYE76_070677 |
| Poaceae | Oryza coarctata | 2 | Oco05G003210, Oco06G003230 |
| Poaceae | Oryza sativa | 1 | LOC_Os03g05806.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_01G477400 |
| Poaceae | Puccinellia tenuiflora | 2 | Pt_Chr0103097, Pt_Chr0601943 |
| Poaceae | Sporobolus alterniflorus | 3 | Chr04G003940, Chr04G004260, Chr07G007270 |
| Poaceae | Thinopyrum elongatum | 1 | Tel4E01G454900 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC4AG005060, gene_TRIDC4BG046640 |
| Poaceae | Triticum aestivum | 3 | TraesCS4A02G036500.1, TraesCS4B02G269400.1 ... |
| Poaceae | Zea mays | 1 | Zm00001eb004240_P001 |
| Poaceae | Zoysia japonica | 1 | nbis-gene-2873 |
| Poaceae | Zoysia macrostachya | 1 | Zma_g2047 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG03.1902, evm.TU.LG14.193 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc06g01220 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_4_RagTag.1593 |
| Rhizophoraceae | Carallia pectinifolia | 3 | nbisL1-mrna-26148, nbisL1-mrna-26150, nbisL1-mrna-26151 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-7182 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-4414 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000008l.871 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00000227 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-2181 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-9576 |
| Salicaceae | Populus euphratica | 2 | populus_peu06232, populus_peu20068 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132614208 |
| Solanaceae | Solanum chilense | 1 | SOLCI003201000 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107004655 |
| Tamaricaceae | Reaumuria soongarica | 1 | gene_13342 |
| Tamaricaceae | Tamarix chinensis | 1 | TC11G1552 |
| Zosteraceae | Zostera marina | 1 | Zosma03g16070.v3.1 |