Basic Information
Locus ID:
Ag5G02549
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
U-box domain-containing protein
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr5 | 302543986 | 302548751 | - | Ag5G02549 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 5.50 | 112,539.58 Da | 40.92 | 110.89 | -0.02 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| Pfam | PF04564 | U-box domain | 259 | 325 | 7.2E-12 | IPR003613 |
| SUPERFAMILY | SSF48371 | ARM repeat | 344 | 734 | 3.79E-30 | IPR016024 |
| SUPERFAMILY | SSF57850 | RING/U-box | 248 | 325 | 2.3E-17 | - |
| SUPERFAMILY | SSF48371 | ARM repeat | 647 | 994 | 3.03E-31 | IPR016024 |
| Gene3D | G3DSA:1.25.10.10 | - | 632 | 846 | 1.6E-24 | IPR011989 |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 257 | 329 | 2.1E-18 | IPR013083 |
| Gene3D | G3DSA:1.25.10.10 | - | 867 | 994 | 2.9E-10 | IPR011989 |
| Gene3D | G3DSA:1.20.930.20 | - | 8 | 120 | 6.6E-8 | IPR036537 |
| Gene3D | G3DSA:1.25.10.10 | - | 472 | 627 | 1.8E-15 | IPR011989 |
| Gene3D | G3DSA:1.25.10.10 | - | 334 | 471 | 1.2E-5 | IPR011989 |
| SMART | SM00185 | arm_5 | 868 | 908 | 180.0 | IPR000225 |
| SMART | SM00185 | arm_5 | 401 | 440 | 490.0 | IPR000225 |
| SMART | SM00504 | Ubox_2 | 258 | 321 | 6.8E-15 | IPR003613 |
| SMART | SM00185 | arm_5 | 530 | 569 | 5.3 | IPR000225 |
| SMART | SM00185 | arm_5 | 750 | 791 | 14.0 | IPR000225 |
| SMART | SM00185 | arm_5 | 570 | 611 | 29.0 | IPR000225 |
| SMART | SM00185 | arm_5 | 794 | 834 | 100.0 | IPR000225 |
| SMART | SM00185 | arm_5 | 911 | 952 | 45.0 | IPR000225 |
| SMART | SM00185 | arm_5 | 664 | 705 | 20.0 | IPR000225 |
| ProSiteProfiles | PS51698 | U-box domain profile. | 254 | 328 | 14.190268 | IPR003613 |
| Coils | Coil | Coil | 66 | 86 | - | - |
| Coils | Coil | Coil | 191 | 211 | - | - |
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_017219804.1 | 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 | A0A164T4W8 | RING-type E3 ubiquitin transferase OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_024195 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 2.337077 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 2.227289 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 5.21764 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 6.07921 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 5.064675 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 3.316756 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 2.38464 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 2.321239 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 7.905384 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 10.10605 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 9.581223 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 7.284756 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 12.11205 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 8.013985 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 6.525712 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 6.357664 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 1.679189 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 14.230495 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 6.375083 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 20.214359 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 22.240683 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 0.696461 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 1.3064 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 1.294392 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 3.127764 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 2.650466 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 1.42587 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 2.860406 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 1.973469 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 2.306663 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 1.349151 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 1.128708 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 9.462858 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 6.4703 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 11.639856 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 9.587283 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 6.822959 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 7.17981 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 8.899398 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 23.979101 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 7.100889 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 8.846925 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 6.85792 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 11.682124 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 9.857659 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 7.077138 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 7.445208 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 2.19086 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 1.520323 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 2.221577 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 1 | jg5773 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30235850 |
| Apiaceae | Apium graveolens | 1 | Ag5G02549 |
| Arecaceae | Cocos nucifera | 1 | COCNU_08G000790 |
| Arecaceae | Phoenix dactylifera | 1 | gene-LOC103711617 |
| Asteraceae | Flaveria trinervia | 1 | FtriNA05963 |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq07G0368 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl07G0379 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_3_RagTag.379 |
| Rhizophoraceae | Carallia pectinifolia | 1 | nbisL1-mrna-1544 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-2607 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-6116 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000019l.999 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00012874 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-6400 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-2184 |
| Salicaceae | Populus euphratica | 1 | populus_peu21467 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132609553 |
| Solanaceae | Solanum chilense | 1 | SOLCI003509000 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107031387 |