Basic Information
Locus ID:
Ag4G01922
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 | 265810845 | 265824762 | - | Ag4G01922 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 6.63 | 52,313.90 Da | 50.70 | 74.87 | -0.45 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| Pfam | PF00097 | Zinc finger, C3HC4 type (RING finger) | 134 | 178 | 2.4E-7 | IPR018957 |
| Pfam | PF17979 | Cysteine rich domain with multizinc binding regions | 253 | 416 | 5.2E-51 | IPR040909 |
| SUPERFAMILY | SSF57850 | RING/U-box | 123 | 185 | 6.65E-14 | - |
| Gene3D | G3DSA:3.30.40.140 | - | 220 | 311 | 9.8E-13 | - |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 115 | 218 | 1.0E-14 | IPR013083 |
| SMART | SM00184 | ring_2 | 134 | 178 | 2.1E-5 | IPR001841 |
| ProSiteProfiles | PS50089 | Zinc finger RING-type profile. | 134 | 179 | 11.869652 | IPR001841 |
Gene Ontology
Molecular Function:
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT1G47570.1 | RING/U-box superfamily protein. | 0 |
| RefSeq | XP_017237611.1 | PREDICTED: E3 ubiquitin-protein ligase CHFR [Daucus carota subsp. sativus] | 0 |
| TrEMBL | A0A162AH82 | RING-type domain-containing protein OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_009615 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 12.381019 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 8.968109 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 9.170858 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 8.112698 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 11.064244 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 8.740961 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 7.735143 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 7.040081 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 19.842932 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 19.242868 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 22.350622 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 21.04982 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 16.579359 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 16.578735 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 6.015082 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 7.451857 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 7.492095 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 6.330525 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 4.057702 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 4.529254 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 6.005739 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 10.990087 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 10.728526 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 11.572241 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 11.000455 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 7.393148 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 5.687499 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 6.099531 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 7.385405 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 1.61822 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 2.65389 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 1.972667 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 3.676813 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 9.718431 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 6.182836 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 2.242503 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 1.287975 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 1.217851 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 8.189155 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 4.245637 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 3.747861 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 6.312673 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 6.360043 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 5.18297 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 5.857742 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 8.462896 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 6.023165 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 20.874653 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 20.881357 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 19.993565 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 1 | jg39732 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_9927 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah006400 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_4g084060 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg16548, Sbi_jg61071 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg22824 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00008109 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl24974, Sgl30122 |
| Amaranthaceae | Chenopodium album | 4 | gene:ENSEOMG00000009684, gene:ENSEOMG00000028294 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.4AG0011810, CQ.Regalona.r1.4BG0012170 |
| Apiaceae | Apium graveolens | 1 | Ag4G01922 |
| Arecaceae | Cocos nucifera | 1 | COCNU_15G002440 |
| Arecaceae | Phoenix dactylifera | 1 | gene-LOC103701290 |
| Asparagaceae | Asparagus officinalis | 1 | AsparagusV1_09.1166.V1.1 |
| Asteraceae | Flaveria trinervia | 2 | Ftri12G04642, Ftri12G13086 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT1G47570.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10016597m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp4g18960.v2.2 |
| Brassicaceae | Brassica nigra | 1 | BniB06g007640.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq06G1421 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl06G1483 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno08g07500 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate02g19070 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG02.2539 |
| Plantaginaceae | Plantago ovata | 3 | Pov_00023469, Pov_00029459, Pov_00029461 |
| Plumbaginaceae | Limonium bicolor | 2 | Lb4G21771, Lb4G21789 |
| Poaceae | Echinochloa crus-galli | 3 | AH04.448, BH04.487, CH04.484 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_9AG0671160, gene-QOZ80_9BG0694570 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.4HG0348810.1 |
| Poaceae | Lolium multiflorum | 1 | gene-QYE76_064652 |
| Poaceae | Oryza coarctata | 1 | Oco21G002310 |
| Poaceae | Oryza sativa | 1 | LOC_Os11g07450.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_05G083100 |
| Poaceae | Puccinellia tenuiflora | 2 | Pt_Chr0104154, Pt_Chr0104204 |
| Poaceae | Sporobolus alterniflorus | 4 | Chr07G020510, Chr16G010230, Chr17G009320, Chr31G001680 |
| Poaceae | Thinopyrum elongatum | 1 | Tel4E01G147000 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC4AG035530, gene_TRIDC4BG014520 |
| Poaceae | Triticum aestivum | 3 | TraesCS4A02G222800.1, TraesCS4B02G093600.2 ... |
| Poaceae | Zea mays | 1 | Zm00001eb200940_P003 |
| Poaceae | Zoysia japonica | 1 | nbis-gene-27159 |
| Poaceae | Zoysia macrostachya | 1 | Zma_g18484 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG08.438, evm.TU.LG22.1449 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc05g19600 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_3_RagTag.828 |
| Rhizophoraceae | Carallia pectinifolia | 2 | nbisL1-mrna-1008, nbisL1-mrna-1010 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-15084 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-6503 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000019l.704 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00012514 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-5167 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-19662 |
| Salicaceae | Populus euphratica | 3 | populus_peu09268, populus_peu19703, populus_peu37619 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132637594 |
| Solanaceae | Solanum chilense | 1 | SOLCI002868600 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107012180 |
| Tamaricaceae | Reaumuria soongarica | 1 | gene_5564 |
| Tamaricaceae | Tamarix chinensis | 1 | TC02G2005 |
| Zosteraceae | Zostera marina | 1 | Zosma04g14880.v3.1 |