Basic Information
Locus ID:
Ag4G01628
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 |
|---|---|---|---|---|
| chr4 | 223926061 | 223937944 | - | Ag4G01628 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 5.00 | 65,993.13 Da | 45.79 | 85.68 | -0.28 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd16450 | mRING-C3HGC3_RFWD3 | 89 | 139 | 9.64318E-23 | - |
| Pfam | PF13639 | Ring finger domain | 93 | 139 | 5.3E-7 | IPR001841 |
| SUPERFAMILY | SSF50978 | WD40 repeat-like | 295 | 546 | 1.59E-12 | IPR036322 |
| SUPERFAMILY | SSF57850 | RING/U-box | 85 | 145 | 3.53E-14 | - |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 78 | 209 | 8.3E-13 | IPR013083 |
| Gene3D | G3DSA:2.130.10.10 | - | 246 | 477 | 5.4E-11 | IPR015943 |
| SMART | SM00184 | ring_2 | 93 | 138 | 2.2E-4 | IPR001841 |
| ProSiteProfiles | PS50089 | Zinc finger RING-type profile. | 93 | 139 | 12.754832 | IPR001841 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 22 | 45 | - | - |
| Coils | Coil | Coil | 159 | 186 | - | - |
| Coils | Coil | Coil | 201 | 221 | - | - |
Gene Ontology
Molecular Function:
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT5G03450.1 | Transducin/WD40 repeat-like superfamily protein. | 0 |
| RefSeq | XP_017237702.1 | PREDICTED: E3 ubiquitin-protein ligase RFWD3-like [Daucus carota subsp. sativus] | 0 |
| A0A974CYQ5 | E3 ubiquitin-protein ligase rfwd3.S OS=Xenopus laevis OX=8355 GN=rfwd3.S PE=1 SV=1 | 0 | |
| TrEMBL | A0A165ZYH4 | RING-type domain-containing protein OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_009308 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 13.555039 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 7.715457 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 7.289021 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 7.173043 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 7.203973 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 4.916417 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 5.912323 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 3.380306 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 15.791381 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 14.734232 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 16.120363 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 27.2446 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 21.007624 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 18.109459 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 6.053045 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 7.723756 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 6.574325 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 5.405747 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 4.916905 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 5.980751 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 7.515508 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 9.014111 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 8.714117 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 8.586374 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 8.303798 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 6.596893 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 6.546526 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 5.863358 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 6.685433 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 0.623374 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 0.565127 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 0.724111 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 2.347428 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 8.422766 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 2.428419 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 1.90265 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 0.516039 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 1.399216 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 7.450756 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 4.647322 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 2.146239 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 1.871486 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 1.917771 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 1.496636 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 1.720597 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 1.915905 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 3.346741 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 19.948912 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 18.135481 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 18.249739 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 1 | jg3501 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_14331 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah030655 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg27168, Sbi_jg33381 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg8063 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00005737 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl71275, Sgl74849 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000035776, gene:ENSEOMG00000036193 ... |
| Amaranthaceae | Chenopodium quinoa | 3 | CQ.Regalona.r1.7AG0018260, CQ.Regalona.r1.7AG0018280 ... |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30273440 |
| Apiaceae | Apium graveolens | 1 | Ag4G01628 |
| Arecaceae | Cocos nucifera | 1 | COCNU_07G011160 |
| Arecaceae | Phoenix dactylifera | 1 | gene-LOC103714133 |
| Asparagaceae | Asparagus officinalis | 1 | AsparagusV1_10.1533.V1.1 |
| Asteraceae | Flaveria trinervia | 2 | Ftri16G05343, Ftri17G14197 |
| Brassicaceae | Arabidopsis thaliana | 2 | AT5G03450.1, AT5G03750.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10013047m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp6g39290.v2.2 |
| Brassicaceae | Brassica nigra | 1 | BniB05g030560.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq08G1376 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl08G1408 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno14g01300 |
| Dunaliellaceae | Dunaliella salina | 2 | Dusal.0094s00010.v1.0, Dusal.0287s00005.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate08g22410 |
| Nitrariaceae | Nitraria sibirica | 2 | evm.TU.LG01.1518, evm.TU.LG05.2094 |
| Plantaginaceae | Plantago ovata | 3 | Pov_00006296, Pov_00006303, Pov_00006309 |
| Plumbaginaceae | Limonium bicolor | 1 | Lb4G26098 |
| Poaceae | Echinochloa crus-galli | 6 | AH01.3023, AH01.5027, BH01.3359, BH01.5163, CH01.3605 ... |
| Poaceae | Eleusine coracana subsp. coracana | 5 | gene-QOZ80_2AG0115560, gene-QOZ80_2BG0169360 ... |
| Poaceae | Hordeum vulgare | 4 | HORVU.MOREX.r3.1HG0055410.1, HORVU.MOREX.r3.4HG0418370.1 ... |
| Poaceae | Lolium multiflorum | 10 | gene-QYE76_013871, gene-QYE76_019151, gene-QYE76_027300 ... |
| Poaceae | Oryza coarctata | 3 | Oco06G000450, Oco19G009380, Oco20G009270 |
| Poaceae | Oryza sativa | 1 | LOC_Os03g01790.1 |
| Poaceae | Paspalum vaginatum | 5 | gene-BS78_01G296400, gene-BS78_01G512200 ... |
| Poaceae | Puccinellia tenuiflora | 7 | Pt_Chr0100926, Pt_Chr0100951, Pt_Chr0100961, Pt_Chr0105812 ... |
| Poaceae | Sporobolus alterniflorus | 6 | Chr07G000270, Chr09G004150, Chr09G009130, Chr13G015890 ... |
| Poaceae | Thinopyrum elongatum | 4 | Tel1E01G354700, Tel4E01G620100, Tel4E01G620300 ... |
| Poaceae | Triticum dicoccoides | 6 | gene_TRIDC1AG031060, gene_TRIDC1BG036520 ... |
| Poaceae | Triticum aestivum | 7 | TraesCS1A02G206000.1, TraesCS1B02G219500.1 ... |
| Poaceae | Zea mays | 3 | Zm00001eb000650_P001, Zm00001eb393970_P002 ... |
| Poaceae | Zoysia japonica | 2 | nbis-gene-3195, nbis-gene-36238 |
| Poaceae | Zoysia macrostachya | 2 | Zma_g12844, Zma_g2271 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG04.946, evm.TU.LG10.1632 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc06g06150 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_2_RagTag.904 |
| Rhizophoraceae | Carallia pectinifolia | 1 | nbisL1-mrna-4298 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-15397 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-10016 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000009l.899 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00005982 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-12614 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-5830 |
| Salicaceae | Populus euphratica | 2 | populus_peu11647, populus_peu20057 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132629991 |
| Solanaceae | Solanum chilense | 1 | SOLCI006631400 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107029570 |
| Tamaricaceae | Reaumuria soongarica | 2 | STRG.27311_chr04_+, gene_7546 |
| Tamaricaceae | Tamarix chinensis | 2 | TC00000075, TC02G1936 |
| Zosteraceae | Zostera marina | 1 | Zosma05g26300.v3.1 |