Basic Information
Locus ID:
Ag10G00889
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 |
|---|---|---|---|---|
| chr10 | 148160855 | 148163517 | - | Ag10G00889 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 8.44 | 63,271.97 Da | 44.77 | 91.41 | -0.27 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd16664 | RING-Ubox_PUB | 47 | 89 | 2.18881E-20 | - |
| Pfam | PF00514 | Armadillo/beta-catenin-like repeat | 500 | 533 | 2.8E-4 | IPR000225 |
| Pfam | PF00514 | Armadillo/beta-catenin-like repeat | 415 | 452 | 3.8E-5 | IPR000225 |
| Pfam | PF00514 | Armadillo/beta-catenin-like repeat | 333 | 370 | 1.9E-7 | IPR000225 |
| Pfam | PF00514 | Armadillo/beta-catenin-like repeat | 377 | 411 | 9.1E-5 | IPR000225 |
| Pfam | PF04564 | U-box domain | 43 | 114 | 2.1E-20 | IPR003613 |
| SUPERFAMILY | SSF57850 | RING/U-box | 41 | 119 | 1.31E-26 | - |
| SUPERFAMILY | SSF48371 | ARM repeat | 296 | 574 | 1.04E-47 | IPR016024 |
| Gene3D | G3DSA:1.25.10.10 | - | 414 | 496 | 1.6E-15 | IPR011989 |
| Gene3D | G3DSA:1.25.10.10 | - | 292 | 413 | 3.2E-26 | IPR011989 |
| Gene3D | G3DSA:1.25.10.10 | - | 497 | 576 | 1.1E-14 | IPR011989 |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 42 | 117 | 3.4E-25 | IPR013083 |
| SMART | SM00185 | arm_5 | 494 | 534 | 18.0 | IPR000225 |
| SMART | SM00185 | arm_5 | 413 | 453 | 1.8 | IPR000225 |
| SMART | SM00185 | arm_5 | 331 | 371 | 0.035 | IPR000225 |
| SMART | SM00504 | Ubox_2 | 46 | 109 | 2.4E-27 | IPR003613 |
| SMART | SM00185 | arm_5 | 372 | 412 | 7.1 | IPR000225 |
| SMART | SM00185 | arm_5 | 454 | 493 | 0.0036 | IPR000225 |
| ProSiteProfiles | PS50176 | Armadillo/plakoglobin ARM repeat profile. | 465 | 506 | 11.8124 | IPR000225 |
| ProSiteProfiles | PS50176 | Armadillo/plakoglobin ARM repeat profile. | 424 | 466 | 9.9924 | IPR000225 |
| ProSiteProfiles | PS51698 | U-box domain profile. | 42 | 116 | 32.394718 | IPR003613 |
| ProSiteProfiles | PS50176 | Armadillo/plakoglobin ARM repeat profile. | 342 | 384 | 10.4124 | IPR000225 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 169 | 254 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 196 | 254 | - | - |
Gene Ontology
Biological Process:
Molecular Function:
KEGG Pathway
KO Term:
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT3G54790.2 | ARM repeat superfamily protein. | 0 |
| RefSeq | XP_017237449.1 | PREDICTED: U-box domain-containing protein 3 [Daucus carota subsp. sativus] | 0 |
| Q8GWV5 | U-box domain-containing protein 3 OS=Arabidopsis thaliana OX=3702 GN=PUB3 PE=2 SV=2 | 0 | |
| TrEMBL | A0A169WDY9 | RING-type E3 ubiquitin transferase OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_012552 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 7.381503 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 7.273676 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 7.94781 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 8.257554 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 7.368775 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 11.802821 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 11.110244 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 10.530936 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 26.304991 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 23.765741 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 28.79406 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 38.780998 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 34.550743 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 34.099552 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 28.950817 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 29.297319 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 35.911293 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 19.600401 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 17.159544 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 15.929759 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 16.870369 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 22.844227 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 23.330399 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 21.263205 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 20.051081 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 22.154768 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 23.810747 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 18.877075 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 21.904871 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 7.533343 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 9.843982 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 7.732312 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 14.856257 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 13.206257 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 15.587624 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 9.206695 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 4.734428 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 6.140108 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 14.607033 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 11.116375 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 8.571911 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 44.206173 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 42.049778 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 36.111378 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 37.718361 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 34.876015 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 38.260246 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 27.93432 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 23.771057 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 23.457186 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 1 | jg8691 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_19294 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah000157 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_5g121370 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg31389, Sbi_jg57887 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg25519 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00026711 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl54453, Sgl59793 |
| Amaranthaceae | Chenopodium album | 2 | gene:ENSEOMG00000007174, gene:ENSEOMG00000023422 |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.5AG0026570, CQ.Regalona.r1.5BG0028100 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30016270 |
| Apiaceae | Apium graveolens | 1 | Ag10G00889 |
| Arecaceae | Cocos nucifera | 1 | COCNU_08G011920 |
| Arecaceae | Phoenix dactylifera | 1 | gene-LOC103720003 |
| Asparagaceae | Asparagus officinalis | 1 | AsparagusV1_Unassigned.72.V1.1 |
| Asteraceae | Flaveria trinervia | 1 | Ftri10G00324 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT3G54790.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10010139m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp5g07650.v2.2 |
| Brassicaceae | Brassica nigra | 2 | BniB06g065160.2N, BniB08g069050.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq06G1331 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl06G1400 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno02g07510 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate08g00250 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 2 | nbisL1-mrna-6357, nbisL1-mrna-9712 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG04.1343 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00002266 |
| Plumbaginaceae | Limonium bicolor | 3 | Lb2G10270, Lb4G23512, Lb4G23513 |
| Portulacaceae | Portulaca oleracea | 3 | evm.TU.LG01.2923, evm.TU.LG02.1213, evm.TU.LG09.755 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc02g17010 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_5_RagTag.1105 |
| Rhizophoraceae | Carallia pectinifolia | 1 | nbisL1-mrna-11573 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-6161 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-10286 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000006l.380 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00013591 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-9909 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-19816 |
| Salicaceae | Populus euphratica | 3 | populus_peu15198, populus_peu15199, populus_peu32866 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132610533 |
| Solanaceae | Solanum chilense | 1 | SOLCI001666900 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107031342 |
| Tamaricaceae | Reaumuria soongarica | 1 | STRG.20338_chr09_+ |
| Tamaricaceae | Tamarix chinensis | 1 | TC07G2422 |