Basic Information
Locus ID:
Ag9G01406
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
RING-type E3 ubiquitin transferase
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr9 | 167307967 | 167321362 | + | Ag9G01406 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 5.99 | 129,939.28 Da | 48.98 | 91.84 | -0.30 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| Pfam | PF04564 | U-box domain | 690 | 761 | 2.4E-7 | IPR003613 |
| SUPERFAMILY | SSF48371 | ARM repeat | 805 | 1119 | 2.96E-7 | IPR016024 |
| SUPERFAMILY | SSF57850 | RING/U-box | 687 | 763 | 1.59E-16 | - |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 685 | 759 | 1.6E-16 | IPR013083 |
| SMART | SM00504 | Ubox_2 | 693 | 757 | 3.6E-17 | IPR003613 |
| ProSiteProfiles | PS51698 | U-box domain profile. | 689 | 764 | 25.680834 | IPR003613 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 16 | 78 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 20 | 55 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 204 | 229 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 230 | 246 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 56 | 78 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 204 | 247 | - | - |
| Coils | Coil | Coil | 298 | 328 | - | - |
Gene Ontology
Biological Process:
Molecular Function:
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT1G23030.1 | ARM repeat superfamily protein. | 0 |
| RefSeq | XP_017226653.1 | PREDICTED: putative E3 ubiquitin-protein ligase LIN isoform X1 [Daucus carota subsp. sativus] | 0 |
| D1FP53 | Putative E3 ubiquitin-protein ligase LIN OS=Medicago truncatula OX=3880 GN=LIN PE=2 SV=1 | 0 | |
| TrEMBL | A0A166GUQ5 | RING-type E3 ubiquitin transferase OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_002025 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 1.599615 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 1.056053 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 0.813699 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 1.114806 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 0.918468 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 0.67093 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 1.173661 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 0.470703 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 2.63045 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 2.70939 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 3.620504 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 3.235373 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 2.601342 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 2.271753 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 1.663975 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 1.513485 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 2.193532 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 1.507904 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 1.041131 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 1.100592 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 1.703548 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 1.503218 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 1.948781 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 1.273374 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 1.906092 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 1.900335 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 0.97049 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 1.466036 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 1.804112 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 0.443242 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 0.361604 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 0.436421 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 0.863901 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 0.826368 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 0.99961 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 1.089507 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 0.229698 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 0.479964 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 0.763962 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 0.666669 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 0.448086 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 1.017452 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 0.6937 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 7.810015 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 4.696809 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 1.501859 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 5.822638 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 1.591529 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 2.700031 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 2.847633 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 2 | jg35519, jg35520 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30054080 |
| Apiaceae | Apium graveolens | 1 | Ag9G01406 |
| Asparagaceae | Asparagus officinalis | 2 | AsparagusV1_04.409.V1.1, AsparagusV1_04.410.V1.1 |
| Asteraceae | Flaveria trinervia | 1 | Ftri17G23193 |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq05G2151 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl05G2242 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG09.484 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00015076 |
| Poaceae | Echinochloa crus-galli | 3 | AH09.2074, BH09.2229, CH09.2372 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_4AG0306240, gene-QOZ80_4BG0337220 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.2HG0196090.1 |
| Poaceae | Lolium multiflorum | 1 | gene-QYE76_045812 |
| Poaceae | Oryza coarctata | 1 | Oco07G014120 |
| Poaceae | Oryza sativa | 1 | LOC_Os04g49500.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_06G199400 |
| Poaceae | Puccinellia tenuiflora | 2 | Pt_Chr0301611, Pt_Chr0306600 |
| Poaceae | Sporobolus alterniflorus | 4 | Chr23G005580, Chr25G004660, Chr26G013970, Chr30G004520 |
| Poaceae | Thinopyrum elongatum | 1 | Tel2E01G773400 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC2AG065120, gene_TRIDC2BG069510 |
| Poaceae | Triticum aestivum | 3 | TraesCS2A02G456200.2, TraesCS2B02G478300.1 ... |
| Poaceae | Zea mays | 4 | Zm00001eb054320_P001, Zm00001eb072830_P001 ... |
| Poaceae | Zoysia japonica | 2 | nbis-gene-22666, nbis-gene-5664 |
| Poaceae | Zoysia macrostachya | 2 | Zma_g20309, Zma_g21852 |
| Rhizophoraceae | Bruguiera sexangula | 2 | evm.TU.Scaffold_7_RagTag.1715, evm.TU.Scaffold_8_RagTag.68 |
| Rhizophoraceae | Carallia pectinifolia | 2 | nbisL1-mrna-10286, nbisL1-mrna-19809 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-6372 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-22638 |
| Rhizophoraceae | Kandelia candel | 2 | add.evm.TU.utg000002l.17, add.evm.TU.utg000002l.18 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00011815 |
| Salicaceae | Populus euphratica | 2 | populus_peu04395, populus_peu35220 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132626006 |
| Solanaceae | Solanum chilense | 1 | SOLCI006667300 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107026658 |