Basic Information
Locus ID:
Ag11G03591
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 |
|---|---|---|---|---|
| chr11 | 57318913 | 57324171 | + | Ag11G03591 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 5.26 | 110,446.60 Da | 51.13 | 104.82 | -0.11 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd16664 | RING-Ubox_PUB | 253 | 294 | 3.11575E-19 | - |
| Pfam | PF04826 | Armadillo-like | 440 | 580 | 9.1E-7 | IPR006911 |
| Pfam | PF04564 | U-box domain | 253 | 319 | 4.0E-18 | IPR003613 |
| SUPERFAMILY | SSF48371 | ARM repeat | 325 | 942 | 5.01E-38 | IPR016024 |
| SUPERFAMILY | SSF48371 | ARM repeat | 633 | 834 | 1.29E-17 | IPR016024 |
| SUPERFAMILY | SSF48371 | ARM repeat | 9 | 403 | 6.81E-7 | IPR016024 |
| SUPERFAMILY | SSF57850 | RING/U-box | 241 | 320 | 1.01E-23 | - |
| Gene3D | G3DSA:1.20.930.20 | - | 2 | 117 | 6.1E-7 | IPR036537 |
| Gene3D | G3DSA:1.25.10.10 | - | 426 | 838 | 2.0E-46 | IPR011989 |
| Gene3D | G3DSA:1.25.10.10 | - | 839 | 984 | 6.9E-11 | IPR011989 |
| Gene3D | G3DSA:1.25.10.10 | - | 326 | 425 | 2.7E-10 | IPR011989 |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 229 | 325 | 7.9E-26 | IPR013083 |
| SMART | SM00185 | arm_5 | 433 | 475 | 200.0 | IPR000225 |
| SMART | SM00185 | arm_5 | 558 | 600 | 170.0 | IPR000225 |
| SMART | SM00185 | arm_5 | 353 | 393 | 13.0 | IPR000225 |
| SMART | SM00185 | arm_5 | 517 | 557 | 0.0087 | IPR000225 |
| SMART | SM00185 | arm_5 | 785 | 825 | 120.0 | IPR000225 |
| SMART | SM00185 | arm_5 | 903 | 943 | 53.0 | IPR000225 |
| SMART | SM00504 | Ubox_2 | 252 | 315 | 8.5E-26 | IPR003613 |
| SMART | SM00185 | arm_5 | 859 | 899 | 8.7 | IPR000225 |
| SMART | SM00185 | arm_5 | 736 | 782 | 360.0 | IPR000225 |
| ProSiteProfiles | PS51698 | U-box domain profile. | 248 | 322 | 32.430099 | IPR003613 |
| ProSiteProfiles | PS50176 | Armadillo/plakoglobin ARM repeat profile. | 569 | 599 | 8.9424 | IPR000225 |
| ProSiteProfiles | PS50176 | Armadillo/plakoglobin ARM repeat profile. | 528 | 570 | 9.1524 | IPR000225 |
| ProSiteProfiles | PS50176 | Armadillo/plakoglobin ARM repeat profile. | 364 | 406 | 10.1324 | IPR000225 |
| Coils | Coil | Coil | 56 | 76 | - | - |
| Coils | Coil | Coil | 190 | 210 | - | - |
Gene Ontology
Biological Process:
Molecular Function:
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT1G76390.1 | ARM repeat superfamily protein. | 0 |
| RefSeq | XP_017257736.1 | PREDICTED: U-box domain-containing protein 44-like [Daucus carota subsp. sativus] | 0 |
| Q9SFX2 | U-box domain-containing protein 43 OS=Arabidopsis thaliana OX=3702 GN=PUB43 PE=2 SV=1 | 0 | |
| TrEMBL | A0A164VL58 | RING-type E3 ubiquitin transferase OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_022124 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 2.034237 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 1.554448 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 1.572761 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 1.553704 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 1.735326 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 2.313305 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 1.518697 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 1.040985 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 16.684378 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 15.058951 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 20.247871 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 12.193395 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 13.38344 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 10.35544 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 7.152724 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 8.41455 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 4.574889 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 15.537152 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 11.83671 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 20.911211 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 19.253685 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 5.920754 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 6.638256 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 6.571146 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 7.40388 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 9.737467 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 6.686001 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 6.870617 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 7.974653 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 4.494403 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 7.822515 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 6.575702 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 12.219479 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 7.444557 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 16.333738 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 7.831184 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 4.607425 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 5.012271 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 13.589978 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 19.919134 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 11.100217 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 18.876961 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 22.42557 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 7.946445 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 6.924286 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 15.876412 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 8.847648 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 4.946253 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 3.201315 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 3.991778 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 2 | jg10276, jg29483 |
| Anacardiaceae | Pistacia vera | 2 | pistato.v30006200, pistato.v30165330 |
| Apiaceae | Apium graveolens | 1 | Ag11G03591 |
| Arecaceae | Cocos nucifera | 1 | scaffold021460G000010 |
| Arecaceae | Phoenix dactylifera | 1 | gene-LOC103719070 |
| Asparagaceae | Asparagus officinalis | 1 | AsparagusV1_08.421.V1.1 |
| Asteraceae | Flaveria trinervia | 2 | Ftri18G26855, Ftri5G33561 |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq04G1296 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl04G1451 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 1 | nbisL1-mrna-2849 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_9_RagTag.629 |
| Rhizophoraceae | Carallia pectinifolia | 1 | nbisL1-mrna-21588 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-9626 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-7428 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000003l.191 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00017527 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-1687 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-5412 |
| Salicaceae | Populus euphratica | 6 | populus_peu27526, populus_peu27527, populus_peu27984 ... |
| Solanaceae | Lycium barbarum | 3 | gene-LOC132632125, gene-LOC132644366, gene-LOC132645405 |
| Solanaceae | Solanum chilense | 2 | SOLCI000591400, SOLCI005051300 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107008446 |