Basic Information
Locus ID:
Ag5G00107
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 |
|---|---|---|---|---|
| chr5 | 1372698 | 1377956 | - | Ag5G00107 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 4.77 | 25,581.94 Da | 61.45 | 50.22 | -0.69 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| Pfam | PF12678 | RING-H2 zinc finger domain | 174 | 217 | 9.4E-11 | IPR024766 |
| SUPERFAMILY | SSF57850 | RING/U-box | 172 | 223 | 5.18E-18 | - |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 157 | 224 | 5.5E-15 | IPR013083 |
| SMART | SM00184 | ring_2 | 177 | 217 | 5.7E-6 | IPR001841 |
| ProSiteProfiles | PS50089 | Zinc finger RING-type profile. | 177 | 217 | 11.692616 | IPR001841 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 50 | 79 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 99 | 125 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 50 | 74 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 99 | 119 | - | - |
Gene Ontology
Molecular Function:
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT3G02290.1 | RING/U-box superfamily protein. | 0 |
| RefSeq | XP_017219452.1 | PREDICTED: E3 ubiquitin-protein ligase At3g02290-like isoform X1 [Daucus carota subsp. sativus] | 0 |
| Q8LE94 | E3 ubiquitin-protein ligase At3g02290 OS=Arabidopsis thaliana OX=3702 GN=At3g02290 PE=2 SV=1 | 0 | |
| TrEMBL | A0A161Y7I4 | RING-type domain-containing protein OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_025454 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 16.202385 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 13.803495 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 16.798811 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 16.193504 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 16.687693 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 21.215458 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 15.376584 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 17.140039 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 26.488808 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 26.049477 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 23.195969 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 22.029118 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 23.009768 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 16.810127 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 42.444202 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 39.021404 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 25.907736 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 22.337372 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 23.000151 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 22.068426 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 21.470098 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 27.665966 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 26.885023 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 27.743433 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 24.273209 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 20.150915 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 17.873859 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 18.178102 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 21.089176 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 11.142394 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 15.267269 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 10.447206 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 22.838203 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 30.672287 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 27.854158 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 9.775691 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 10.134262 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 8.117061 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 15.902461 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 11.416152 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 8.366343 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 29.099689 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 57.063477 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 69.063454 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 96.793571 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 18.613899 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 83.923904 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 32.675911 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 62.420872 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 68.042976 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 5 | jg17552, jg19742, jg40158, jg5340, jg7162 |
| Aizoaceae | Mesembryanthemum crystallinum | 2 | gene_24259, gene_3884 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah035615 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_2g028140 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg21664, Sbi_jg22148 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg16078 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00008698 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl62626, Sgl67191 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000017007, gene:ENSEOMG00000020744 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.2AG0018120, CQ.Regalona.r1.2BG0019680 |
| Anacardiaceae | Pistacia vera | 3 | pistato.v30167690, pistato.v30192650, pistato.v30226540 |
| Apiaceae | Apium graveolens | 3 | Ag1G00259, Ag4G00981, Ag5G00107 |
| Arecaceae | Cocos nucifera | 5 | COCNU_05G001620, COCNU_11G004030, COCNU_13G005410 ... |
| Arecaceae | Phoenix dactylifera | 8 | gene-LOC103696993, gene-LOC103698642, gene-LOC103699434 ... |
| Asparagaceae | Asparagus officinalis | 3 | AsparagusV1_06.1990.V1.1, AsparagusV1_09.1509.V1.1 ... |
| Asteraceae | Flaveria trinervia | 3 | Ftri13G12871, Ftri17G11634, Ftri3G22552 |
| Brassicaceae | Arabidopsis thaliana | 3 | AT3G02290.1, AT5G15790.1, AT5G38895.3 |
| Brassicaceae | Eutrema salsugineum | 4 | Thhalv10014574m.g.v1.0, Thhalv10019777m.g.v1.0 ... |
| Brassicaceae | Schrenkiella parvula | 4 | Sp3g01350.v2.2, Sp5g24180.v2.2, Sp6g28330.v2.2 ... |
| Brassicaceae | Brassica nigra | 5 | BniB01g028780.2N, BniB01g061090.2N, BniB02g047040.2N ... |
| Casuarinaceae | Casuarina equisetifolia | 2 | Ceq07G0923, Ceq08G0503 |
| Casuarinaceae | Casuarina glauca | 2 | Cgl07G0967, Cgl08G0465 |
| Cymodoceaceae | Cymodocea nodosa | 3 | gene.Cymno08g05100, gene.Cymno09g05990, gene.Cymno10g06740 |
| Hydrocharitaceae | Thalassia testudinum | 3 | gene.Thate01g26320, gene.Thate02g29890, gene.Thate04g06270 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 2 | nbisL1-mrna-5791, nbisL1-mrna-9879 |
| Nitrariaceae | Nitraria sibirica | 3 | evm.TU.LG02.331, evm.TU.LG02.962, evm.TU.LG05.2113 |
| Plantaginaceae | Plantago ovata | 3 | Pov_00023703, Pov_00027315, Pov_00028098 |
| Plumbaginaceae | Limonium bicolor | 4 | Lb1G00440, Lb1G01382, Lb1G02004, Lb3G20869 |
| Poaceae | Echinochloa crus-galli | 5 | AH02.4378, AH04.2025, BH04.2058, CH02.4462, CH04.2392 |
| Poaceae | Eleusine coracana subsp. coracana | 4 | gene-QOZ80_1AG0045060, gene-QOZ80_1BG0095080 ... |
| Poaceae | Hordeum vulgare | 2 | HORVU.MOREX.r3.3HG0312000.1, HORVU.MOREX.r3.4HG0361220.1 |
| Poaceae | Lolium multiflorum | 2 | gene-QYE76_057545, gene-QYE76_065917 |
| Poaceae | Oryza coarctata | 4 | Oco01G028910, Oco02G030020, Oco21G008720, Oco22G009980 |
| Poaceae | Oryza sativa | 2 | LOC_Os01g70160.1, LOC_Os11g41140.1 |
| Poaceae | Paspalum vaginatum | 4 | gene-BS78_03G388600, gene-BS78_03G414600, gene-BS78_K099500 ... |
| Poaceae | Puccinellia tenuiflora | 2 | Pt_Chr0103316, Pt_Chr0602606 |
| Poaceae | Sporobolus alterniflorus | 9 | Chr02G002110, Chr03G023180, Chr05G032370, Chr07G014750 ... |
| Poaceae | Thinopyrum elongatum | 2 | Tel3E01G695400, Tel4E01G281100 |
| Poaceae | Triticum dicoccoides | 4 | gene_TRIDC3AG062230, gene_TRIDC3BG069830 ... |
| Poaceae | Triticum aestivum | 6 | TraesCS3A02G439700.1, TraesCS3B02G473700.1 ... |
| Poaceae | Zea mays | 5 | Zm00001eb142740_P002, Zm00001eb166460_P002 ... |
| Poaceae | Zoysia japonica | 2 | nbis-gene-10935, nbis-gene-53635 |
| Poaceae | Zoysia macrostachya | 4 | Zma_g11846, Zma_g18215, Zma_g19070, Zma_g9303 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG05.721, evm.TU.LG25.602 |
| Posidoniaceae | Posidonia oceanica | 3 | gene.Posoc04g10460, gene.Posoc05g14570, gene.Posoc06g19420 |
| Rhizophoraceae | Bruguiera sexangula | 2 | evm.TU.Scaffold_3_RagTag.1683, evm.TU.Scaffold_6_RagTag.425 |
| Rhizophoraceae | Carallia pectinifolia | 3 | nbisL1-mrna-15291, nbisL1-mrna-1985, nbisL1-mrna-2131 |
| Rhizophoraceae | Ceriops tagal | 2 | nbisL1-mrna-11496, nbisL1-mrna-15750 |
| Rhizophoraceae | Ceriops zippeliana | 2 | nbisL1-mrna-2883, nbisL1-mrna-338 |
| Rhizophoraceae | Kandelia candel | 2 | evm.TU.utg000011l.232, evm.TU.utg000019l.217 |
| Rhizophoraceae | Kandelia obovata | 2 | Maker00002121, Maker00007100 |
| Rhizophoraceae | Rhizophora apiculata | 2 | nbisL1-mrna-11727, nbisL1-mrna-5317 |
| Rhizophoraceae | Rhizophora mangle | 2 | nbisL1-mrna-13048, nbisL1-mrna-3808 |
| Salicaceae | Populus euphratica | 5 | populus_peu03899, populus_peu09390, populus_peu09416 ... |
| Solanaceae | Lycium barbarum | 2 | gene-LOC132621202, gene-LOC132621716 |
| Solanaceae | Solanum chilense | 2 | SOLCI001634400, SOLCI002333500 |
| Solanaceae | Solanum pennellii | 2 | gene-LOC107008656, gene-LOC107008965 |
| Tamaricaceae | Reaumuria soongarica | 2 | gene_12724, gene_7134 |
| Tamaricaceae | Tamarix chinensis | 2 | TC01G0131, TC05G1353 |
| Zosteraceae | Zostera marina | 3 | Zosma02g01170.v3.1, Zosma03g29760.v3.1, Zosma05g09120.v3.1 |