Basic Information
Locus ID:
Ag10G01013
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
Zinc finger, C3HC4 type (RING finger)
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr10 | 155891315 | 155895724 | + | Ag10G01013 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 4.69 | 59,803.74 Da | 62.84 | 68.97 | -0.66 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| Pfam | PF13639 | Ring finger domain | 355 | 396 | 5.3E-10 | IPR001841 |
| SUPERFAMILY | SSF57850 | RING/U-box | 338 | 402 | 4.04E-19 | - |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 320 | 402 | 1.9E-18 | IPR013083 |
| SMART | SM00184 | ring_2 | 355 | 395 | 9.5E-7 | IPR001841 |
| ProSiteProfiles | PS50089 | Zinc finger RING-type profile. | 355 | 396 | 12.445019 | IPR001841 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 104 | 135 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 20 | - | - |
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT5G01980.1 | RING/U-box superfamily protein. | 0 |
| RefSeq | XP_017248582.1 | PREDICTED: uncharacterized protein LOC108219581 [Daucus carota subsp. sativus] | 0 |
| Q8LPN7 | E3 ubiquitin-protein ligase RING1-like OS=Arabidopsis thaliana OX=3702 GN=At3g19950 PE=1 SV=1 | 0 | |
| TrEMBL | A0A165WAB9 | RING-type domain-containing protein OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_015321 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 5.826065 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 5.155416 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 5.865726 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 5.506137 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 5.825608 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 8.781904 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 5.539691 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 5.157086 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 10.409279 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 13.007266 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 11.755757 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 11.868534 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 11.856773 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 10.427708 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 8.28583 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 8.180797 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 7.205032 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 6.78714 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 5.84276 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 8.051322 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 7.541182 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 8.646753 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 8.95096 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 7.566607 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 8.682464 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 7.72012 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 7.462782 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 6.426885 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 7.271069 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 3.951215 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 4.574335 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 3.617621 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 8.932133 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 7.648435 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 8.648931 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 4.13348 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 3.54089 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 3.472441 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 6.382256 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 3.636991 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 2.455855 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 10.378549 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 10.315108 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 13.421362 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 11.364496 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 8.609693 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 10.391724 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 9.842798 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 10.807158 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 9.242927 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 1 | jg3140 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_20446 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah031585 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_7g156580 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg2101, Sbi_jg34412 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg2668 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00005825 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl71158, Sgl74740 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000008045, gene:ENSEOMG00000036869 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.7AG0023420, CQ.Regalona.r1.7BG0026090 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30269630 |
| Apiaceae | Apium graveolens | 1 | Ag10G01013 |
| Arecaceae | Cocos nucifera | 1 | COCNU_04G004910 |
| Arecaceae | Phoenix dactylifera | 1 | gene-LOC103716699 |
| Asparagaceae | Asparagus officinalis | 1 | AsparagusV1_Unassigned.402.V1.1 |
| Asteraceae | Flaveria trinervia | 2 | Ftri10G18167, Ftri9G30037 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT5G01980.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10015834m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp1g38040.v2.2 |
| Brassicaceae | Brassica nigra | 1 | BniB07g004630.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq08G0855 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl08G0873 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno04g11880 |
| Hydrocharitaceae | Thalassia testudinum | 2 | gene.Thate01g29530, gene.Thate06g06260 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 2 | nbisL1-mrna-11940, nbisL1-mrna-4866 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG01.826 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00006999 |
| Poaceae | Echinochloa crus-galli | 2 | BH04.105, BH05.51 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_9AG0672710, gene-QOZ80_9BG0696330 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.5HG0464020.1.CDS1 |
| Poaceae | Lolium multiflorum | 1 | gene-QYE76_003526 |
| Poaceae | Oryza coarctata | 5 | Oco22G000660, Oco22G000680, Oco24G000010 ... |
| Poaceae | Oryza sativa | 2 | LOC_Os11g02670.1, LOC_Os12g02620.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_05G017200 |
| Poaceae | Puccinellia tenuiflora | 2 | Pt_Chr0107798, Pt_Chr0702912 |
| Poaceae | Sporobolus alterniflorus | 2 | Chr04G021070, Chr06G022690 |
| Poaceae | Thinopyrum elongatum | 1 | Tel5E01G255500 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC5AG024420, gene_TRIDC5BG025620 |
| Poaceae | Triticum aestivum | 3 | TraesCS5A02G145800.1.cds1, TraesCS5B02G144700.1.cds1 ... |
| Poaceae | Zea mays | 1 | Zm00001eb195510_P001 |
| Poaceae | Zoysia macrostachya | 1 | Zma_g18351 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG07.218, evm.TU.LG15.746 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc01g27670 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_2_RagTag.1285 |
| Rhizophoraceae | Carallia pectinifolia | 2 | nbisL1-mrna-3930, nbisL1-mrna-3951 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-17311 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-18734 |
| Rhizophoraceae | Kandelia candel | 1 | add.evm.TU.utg000009l.160 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00006009 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-21739 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-23206 |
| Salicaceae | Populus euphratica | 2 | populus_peu11544, populus_peu25219 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132631251 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC114074001 |
| Tamaricaceae | Reaumuria soongarica | 2 | gene_4353, gene_6601 |
| Tamaricaceae | Tamarix chinensis | 1 | TC07G0929 |