Basic Information
Locus ID:
Ag1G00349
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
E3 ubiquitin-protein ligase PUB23-like
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr1 | 34008737 | 34010339 | - | Ag1G00349 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 7.50 | 45,712.28 Da | 45.19 | 103.93 | 0.14 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd16664 | RING-Ubox_PUB | 7 | 50 | 3.61906E-20 | - |
| Pfam | PF04564 | U-box domain | 6 | 72 | 4.9E-17 | IPR003613 |
| SUPERFAMILY | SSF48371 | ARM repeat | 100 | 352 | 1.85E-14 | IPR016024 |
| SUPERFAMILY | SSF57850 | RING/U-box | 2 | 72 | 1.18E-22 | - |
| Gene3D | G3DSA:1.25.10.10 | - | 135 | 381 | 7.0E-14 | IPR011989 |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 1 | 87 | 2.8E-24 | IPR013083 |
| SMART | SM00504 | Ubox_2 | 6 | 70 | 1.7E-24 | IPR003613 |
| ProSiteProfiles | PS51698 | U-box domain profile. | 2 | 77 | 29.245651 | IPR003613 |
Gene Ontology
Biological Process:
Molecular Function:
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT3G52450.1 | plant U-box 22. Encodes a cytoplasmically localized U-box domain E3 ubiquitin ligase protein that is involved in the response to water stress and acts as a negative regulator of PAMP-triggered immunity. | 0 |
| RefSeq | XP_017225820.1 | PREDICTED: E3 ubiquitin-protein ligase PUB22-like [Daucus carota subsp. sativus] | 0 |
| Q9SVC6 | E3 ubiquitin-protein ligase PUB22 OS=Arabidopsis thaliana OX=3702 GN=PUB22 PE=1 SV=1 | 0 | |
| TrEMBL | A0A175YEM2 | RING-type E3 ubiquitin transferase OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_029546 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 0.860608 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 1.394484 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 0.820291 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 0.817897 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 0.711406 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 0.815699 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 1.284868 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 0.292022 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 2.043382 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 1.615775 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 1.331598 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 1.156383 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 1.30444 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 1.052838 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 0.10089 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 0.043737 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 0.102929 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 0.670524 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 0.70743 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 1.46315 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 1.529655 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 0.046243 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 0 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 0.108815 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 0 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 0.21408 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 0.225069 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 0.176721 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 0.292913 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 1.045364 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 0.94071 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 0.695228 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 3.146913 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 1.124949 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 4.38758 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 1.699073 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 1.689677 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 1.288442 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 4.763001 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 8.960949 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 6.274462 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 0.917375 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 0.795911 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 0 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 0.290615 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 0.492962 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 0.139814 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 0.277455 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 0 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 0 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 2 | jg1706, jg29115 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30001010 |
| Apiaceae | Apium graveolens | 1 | Ag1G00349 |
| Arecaceae | Cocos nucifera | 1 | COCNU_07G004100 |
| Arecaceae | Phoenix dactylifera | 1 | gene-LOC103711824 |
| Asparagaceae | Asparagus officinalis | 1 | AsparagusV1_04.1718.V1.1 |
| Asteraceae | Flaveria trinervia | 2 | Ftri15G25469, Ftri16G33272 |
| Cymodoceaceae | Cymodocea nodosa | 2 | gene.Cymno15g01710, gene.Cymno18g04500 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate09g03570 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00032587 |
| Poaceae | Echinochloa crus-galli | 5 | AH07.3056, AH09.2109, BH07.2881, BH09.2278, CH09.2421 |
| Poaceae | Eleusine coracana subsp. coracana | 4 | gene-QOZ80_2AG0141530, gene-QOZ80_2BG0197120 ... |
| Poaceae | Hordeum vulgare | 2 | HORVU.MOREX.r3.2HG0196950.1.CDS1 ... |
| Poaceae | Lolium multiflorum | 3 | gene-QYE76_006648, gene-QYE76_024482, gene-QYE76_040120 |
| Poaceae | Oryza coarctata | 3 | Oco03G018620, Oco04G019350, Oco07G014460 |
| Poaceae | Oryza sativa | 3 | LOC_Os02g12410.1, LOC_Os02g46500.1, LOC_Os04g49970.1 |
| Poaceae | Paspalum vaginatum | 2 | gene-BS78_04G233000, gene-BS78_06G208300 |
| Poaceae | Sporobolus alterniflorus | 7 | Chr06G004740, Chr09G023080, Chr15G006220, Chr23G003090 ... |
| Poaceae | Thinopyrum elongatum | 1 | Tel2E01G764200 |
| Poaceae | Triticum dicoccoides | 4 | gene_TRIDC2AG064310, gene_TRIDC2BG068630 ... |
| Poaceae | Triticum aestivum | 6 | TraesCS2A02G450300.1.cds1, TraesCS2B02G471900.1.cds1 ... |
| Poaceae | Zea mays | 3 | Zm00001eb072440_P002, Zm00001eb251170_P001 ... |
| Poaceae | Zoysia japonica | 4 | nbis-gene-22207, nbis-gene-22699, nbis-gene-5698 ... |
| Poaceae | Zoysia macrostachya | 5 | Zma_g14169, Zma_g16913, Zma_g16914, Zma_g20330, Zma_g21879 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc07g03230 |
| Rhizophoraceae | Bruguiera sexangula | 2 | evm.TU.Scaffold_11_RagTag.13, evm.TU.Scaffold_18_RagTag.153 |
| Rhizophoraceae | Carallia pectinifolia | 2 | nbisL1-mrna-28399, nbisL1-mrna-7117 |
| Rhizophoraceae | Ceriops zippeliana | 2 | nbisL1-mrna-14534, nbisL1-mrna-19030 |
| Rhizophoraceae | Kandelia candel | 2 | add.evm.TU.utg000005l.150, add.evm.TU.utg000034l.15 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-16863 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-22106 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132599911 |
| Solanaceae | Solanum chilense | 1 | SOLCI004379300 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107029725 |
| Zosteraceae | Zostera marina | 1 | Zosma02g05420.v3.1 |