Basic Information
Locus ID:
Ag6G02836
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
Required for maturation of ribosomal RNAs and formation of the large ribosomal subunit
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr6 | 299306820 | 299315422 | + | Ag6G02836 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 5.48 | 77,902.66 Da | 53.50 | 74.27 | -0.68 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| Pfam | PF08145 | BOP1NT (NUC169) domain | 88 | 341 | 4.2E-97 | IPR012953 |
| Pfam | PF00400 | WD domain, G-beta repeat | 591 | 627 | 6.2E-5 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 643 | 682 | 7.5E-4 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 344 | 379 | 3.9E-10 | IPR001680 |
| SUPERFAMILY | SSF50978 | WD40 repeat-like | 306 | 682 | 1.28E-47 | IPR036322 |
| Gene3D | G3DSA:2.130.10.10 | - | 331 | 684 | 5.1E-138 | IPR015943 |
| SMART | SM00320 | WD40_4 | 546 | 585 | 0.51 | IPR001680 |
| SMART | SM00320 | WD40_4 | 589 | 628 | 3.1E-6 | IPR001680 |
| SMART | SM00320 | WD40_4 | 341 | 380 | 1.1E-10 | IPR001680 |
| SMART | SM00320 | WD40_4 | 506 | 543 | 390.0 | IPR001680 |
| SMART | SM01035 | BOP1NT_2 | 88 | 341 | 7.9E-130 | IPR012953 |
| SMART | SM00320 | WD40_4 | 640 | 683 | 0.0036 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 348 | 389 | 17.55969 | IPR001680 |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 348 | 385 | 13.632853 | - |
| ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 367 | 381 | - | IPR019775 |
| Hamap | MF_03027 | Ribosome biogenesis protein @gn(BOP1) [BOP1]. | 1 | 683 | 43.224976 | IPR028598 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 36 | 50 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 110 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 51 | 86 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 22 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 87 | 110 | - | - |
Gene Ontology
Biological Process:
Molecular Function:
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT2G40360.2 | - | 0 |
| RefSeq | XP_017229518.1 | PREDICTED: ribosome biogenesis protein BOP1 homolog [Daucus carota subsp. sativus] | 0 |
| F4IH25 | Ribosome biogenesis protein BOP1 homolog OS=Arabidopsis thaliana OX=3702 GN=BOP1 PE=1 SV=1 | 0 | |
| TrEMBL | A0A6L5BFN2 | Ribosome biogenesis protein BOP1 homolog OS=Apium graveolens OX=4045 GN=AG4045_021031 PE=3 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 1.941157 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 1.083346 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 1.110792 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 0.88668 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 1.659117 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 1.225149 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 1.11632 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 0.661298 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 0 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 0 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 0.064593 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 0 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 0.288902 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 0 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 0.57337 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 0.914437 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 1.086622 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 1.346799 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 0.746423 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 1.060551 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 2.124004 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 0.865254 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 0.742737 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 0.919944 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 1.019604 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 1.505483 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 2.619384 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 1.534694 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 2.031632 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 0.062463 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 0.16713 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 0.205992 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 1.349169 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 0.734365 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 1.668287 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 0.619984 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 0.103413 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 0.27946 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 0.689716 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 0.61606 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 0.606735 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 2.078728 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 0.723607 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 5.357832 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 0.788973 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 1.96606 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 8.588616 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 1.562683 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 1.755233 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 1.715304 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 1 | jg29950 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_24181 |
| Amaranthaceae | Atriplex hortensis | 2 | Ah026706, Ah026707 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_6g138740 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg18327, Sbi_jg36706 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg4652 |
| Amaranthaceae | Suaeda aralocaspica | 2 | GOSA_00013517, GOSA_00013518 |
| Amaranthaceae | Suaeda glauca | 3 | Sgl34219, Sgl39517, Sgl39562 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000001074, gene:ENSEOMG00000003254 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.6AG0018840, CQ.Regalona.r1.6BG0019890 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30111660 |
| Apiaceae | Apium graveolens | 4 | Ag1G00714, Ag6G02836, Ag9G01525, AgUnG00063 |
| Arecaceae | Cocos nucifera | 1 | COCNU_03G008500 |
| Arecaceae | Phoenix dactylifera | 1 | gene-LOC103721398 |
| Asparagaceae | Asparagus officinalis | 4 | AsparagusV1_02.1845.V1.1, AsparagusV1_03.229.V1.1 ... |
| Asteraceae | Flaveria trinervia | 2 | Ftri15G06808, Ftri15G16982 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT2G40360.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10001320m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp4g27170.v2.2 |
| Brassicaceae | Brassica nigra | 3 | BniB06g003520.2N, BniB06g003570.2N, BniB08g029370.2N |
| Casuarinaceae | Casuarina equisetifolia | 2 | Ceq07G2158, Ceq07G2177 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl07G2388 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno10g02260 |
| Dunaliellaceae | Dunaliella salina | 2 | Dusal.1024s00003.v1.0, Dusal.1024s00004.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate05g01370 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 1 | nbisL1-mrna-6784 |
| Nitrariaceae | Nitraria sibirica | 3 | evm.TU.LG08.778, evm.TU.LG08.779, evm.TU.LG08.795 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00001957 |
| Plumbaginaceae | Limonium bicolor | 1 | Lb2G15169 |
| Poaceae | Echinochloa crus-galli | 3 | AH08.1350, BH08.1556, CH08.1579 |
| Poaceae | Eleusine coracana subsp. coracana | 1 | gene-QOZ80_7BG0599220 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.5HG0505300.1 |
| Poaceae | Lolium multiflorum | 1 | gene-QYE76_049929 |
| Poaceae | Oryza coarctata | 2 | Oco13G005510, Oco14G006200 |
| Poaceae | Oryza sativa | 1 | LOC_Os07g25440.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_03G078500 |
| Poaceae | Puccinellia tenuiflora | 2 | Pt_Chr0207426, Pt_Chr0604862 |
| Poaceae | Sporobolus alterniflorus | 4 | Chr01G001790, Chr04G031340, Chr07G030350, Chr12G033500 |
| Poaceae | Thinopyrum elongatum | 2 | Tel5E01G577300, Tel6E01G786900 |
| Poaceae | Triticum dicoccoides | 4 | gene_TRIDC4AG035400, gene_TRIDC5AG052800 ... |
| Poaceae | Triticum aestivum | 3 | TraesCS5A02G360900.2, TraesCS5B02G363500.1 ... |
| Poaceae | Zea mays | 1 | Zm00001eb131370_P002 |
| Poaceae | Zoysia japonica | 1 | nbis-gene-15470 |
| Poaceae | Zoysia macrostachya | 1 | Zma_g191 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc01g00690 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_2_RagTag.1470 |
| Rhizophoraceae | Carallia pectinifolia | 2 | nbisL1-mrna-3736, nbisL1-mrna-3739 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-6051 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-18888 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000009l.433 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00005331 |
| Rhizophoraceae | Rhizophora apiculata | 2 | nbisL1-mrna-2864, nbisL1-mrna-2865 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-19176 |
| Salicaceae | Populus euphratica | 1 | populus_peu08269 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132598660 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107007762 |
| Tamaricaceae | Reaumuria soongarica | 1 | gene_15438 |
| Tamaricaceae | Tamarix chinensis | 1 | TC09G0676 |
| Zosteraceae | Zostera marina | 1 | Zosma01g19900.v3.1 |