Basic Information
Locus ID:
Ag1G00397
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
E3 ubiquitin-protein ligase
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr1 | 47261037 | 47269331 | + | Ag1G00397 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 5.35 | 35,341.97 Da | 60.52 | 73.55 | -0.45 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd16667 | RING-H2_RNF126_like | 152 | 193 | 6.48811E-23 | - |
| Pfam | PF14369 | zinc-ribbon | 13 | 45 | 3.1E-12 | IPR039525 |
| Pfam | PF13639 | Ring finger domain | 152 | 193 | 1.1E-10 | IPR001841 |
| SUPERFAMILY | SSF57850 | RING/U-box | 151 | 198 | 6.85E-19 | - |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 117 | 199 | 2.5E-19 | IPR013083 |
| SMART | SM00184 | ring_2 | 152 | 192 | 1.0E-6 | IPR001841 |
| ProSiteProfiles | PS50089 | Zinc finger RING-type profile. | 152 | 193 | 12.282736 | IPR001841 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 287 | 318 | - | - |
Gene Ontology
Molecular Function:
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT3G60080.1 | RING/U-box superfamily protein. | 0 |
| RefSeq | XP_017226877.1 | PREDICTED: probable E3 ubiquitin-protein ligase RHC1A [Daucus carota subsp. sativus] | 0 |
| O22283 | Probable E3 ubiquitin-protein ligase RHC2A OS=Arabidopsis thaliana OX=3702 GN=RHC2A PE=2 SV=1 | 0 | |
| TrEMBL | A0A175YEY4 | RING-type E3 ubiquitin transferase OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_029590 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 36.416656 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 21.30736 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 30.739532 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 29.17263 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 30.246138 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 33.277519 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 30.177748 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 32.137264 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 36.291996 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 34.820648 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 34.843014 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 36.392471 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 35.213791 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 37.210392 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 18.741642 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 25.048353 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 19.707045 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 20.390339 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 20.965221 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 27.641333 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 32.454948 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 34.354908 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 35.225117 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 30.909124 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 30.650507 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 26.139935 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 27.285589 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 25.432348 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 28.469788 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 43.669899 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 44.741199 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 43.809917 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 76.668434 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 39.26572 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 87.004616 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 45.454594 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 57.378868 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 58.120564 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 26.738842 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 22.077442 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 16.9375 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 29.533007 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 26.22788 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 29.133904 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 29.881956 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 39.800369 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 30.632669 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 27.666874 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 26.071758 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 31.169924 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 1 | jg29079 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30231180 |
| Apiaceae | Apium graveolens | 1 | Ag1G00397 |
| Arecaceae | Cocos nucifera | 2 | COCNU_03G003380, COCNU_08G002620 |
| Arecaceae | Phoenix dactylifera | 3 | gene-LOC103706822, gene-LOC103708666, gene-LOC120112361 |
| Asteraceae | Flaveria trinervia | 1 | Ftri15G11843 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT3G60080.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10006114m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp5g03130.v2.2 |
| Brassicaceae | Brassica nigra | 1 | BniB08g074400.2N |
| Cymodoceaceae | Cymodocea nodosa | 3 | gene.Cymno02g04150, gene.Cymno03g10680, gene.Cymno05g11760 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate07g06490 |
| Plantaginaceae | Plantago ovata | 2 | Pov_00016882, Pov_00031121 |
| Poaceae | Echinochloa crus-galli | 6 | AH02.3218, BH08.1851, CH02.1238, CH02.4643, CH02.487 ... |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_8AG0633530, gene-QOZ80_8BG0662680 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.7HG0671600.1.CDS1 |
| Poaceae | Oryza coarctata | 2 | Oco15G013120, Oco16G009400 |
| Poaceae | Oryza sativa | 1 | LOC_Os08g36170.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_07G160700 |
| Poaceae | Puccinellia tenuiflora | 1 | Pt_Chr0403256 |
| Poaceae | Sporobolus alterniflorus | 4 | Chr16G015470, Chr17G014900, Chr20G004450, Chr29G004250 |
| Poaceae | Thinopyrum elongatum | 1 | Tel7E01G384000 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC7AG026680, gene_TRIDC7BG017250 |
| Poaceae | Triticum aestivum | 3 | TraesCS7A02G211800.1.cds1, TraesCS7B02G118700.1.cds1 ... |
| Poaceae | Zea mays | 1 | Zm00001eb406020_P001 |
| Poaceae | Zoysia japonica | 2 | nbis-gene-17156, nbis-gene-47761 |
| Poaceae | Zoysia macrostachya | 2 | Zma_g23109, Zma_g24193 |
| Posidoniaceae | Posidonia oceanica | 2 | gene.Posoc01g25170, gene.Posoc02g25540 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132636059 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107031828 |
| Zosteraceae | Zostera marina | 2 | Zosma03g31060.v3.1, Zosma04g18240.v3.1 |