Basic Information
Locus ID:
AgUnG01316
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 |
|---|---|---|---|---|
| ctg7290 | 64262 | 66154 | - | AgUnG01316 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 9.55 | 23,606.18 Da | 87.64 | 55.70 | -1.01 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd16454 | RING-H2_PA-TM-RING | 162 | 204 | 4.7165E-19 | - |
| Pfam | PF13639 | Ring finger domain | 162 | 204 | 3.5E-11 | IPR001841 |
| SUPERFAMILY | SSF57850 | RING/U-box | 152 | 207 | 1.57E-18 | - |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 119 | 207 | 6.1E-18 | IPR013083 |
| SMART | SM00184 | ring_2 | 163 | 203 | 6.1E-5 | IPR001841 |
| ProSiteProfiles | PS50089 | Zinc finger RING-type profile. | 163 | 204 | 12.725326 | IPR001841 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 66 | 105 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 60 | 140 | - | - |
| Coils | Coil | Coil | 54 | 74 | - | - |
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT2G15580.1 | RING/U-box superfamily protein. | 0 |
| RefSeq | XP_022730703.1 | probable E3 ubiquitin-protein ligase RHY1A [Durio zibethinus] | 0 |
| A5WWA0 | E3 ubiquitin-protein ligase znrf3 OS=Danio rerio OX=7955 GN=znrf3 PE=1 SV=2 | 0 | |
| TrEMBL | A0A6L5B7H3 | RING-type domain-containing protein OS=Apium graveolens OX=4045 GN=AG4045_028820 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 12.987841 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 12.694403 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 11.880293 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 13.360509 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 12.846248 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 8.341427 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 6.363174 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 4.530783 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 63.572144 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 68.517967 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 56.902943 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 59.238396 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 82.253922 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 86.294029 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 36.098602 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 39.100285 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 28.149319 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 58.062565 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 68.034691 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 53.825706 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 57.656063 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 46.346012 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 30.256632 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 50.750126 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 55.650883 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 42.475761 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 32.383984 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 51.189617 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 41.431995 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 68.121719 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 66.804321 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 64.82856 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 112.995117 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 56.989719 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 108.335907 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 67.688354 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 66.471367 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 64.056717 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 15.719482 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 24.157127 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 17.179115 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 49.637981 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 67.825737 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 98.469269 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 67.140579 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 54.281715 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 77.308136 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 61.829166 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 18.709824 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 21.181917 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 4 | jg31585, jg31586, jg3939, jg3941 |
| Aizoaceae | Mesembryanthemum crystallinum | 2 | gene_8641, gene_8919 |
| Amaranthaceae | Atriplex hortensis | 2 | Ah014179, Ah014180 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg25440, Sbi_jg9286 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg19310 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00011098 |
| Amaranthaceae | Suaeda glauca | 4 | Sgl41853, Sgl41854, Sgl46654, Sgl46655 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000009459, gene:ENSEOMG00000032499 ... |
| Anacardiaceae | Pistacia vera | 2 | pistato.v30179710, pistato.v30266860 |
| Apiaceae | Apium graveolens | 2 | Ag3G02724, AgUnG01316 |
| Arecaceae | Cocos nucifera | 1 | COCNU_01G005650 |
| Arecaceae | Phoenix dactylifera | 2 | gene-LOC103703667, gene-LOC120110833 |
| Asparagaceae | Asparagus officinalis | 1 | AsparagusV1_08.812.V1.1 |
| Asteraceae | Flaveria trinervia | 3 | Ftri15G25309, Ftri4G01674, Ftri8G15360 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT2G15580.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10022864m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp3g28870.v2.2 |
| Brassicaceae | Brassica nigra | 2 | BniB02g012090.2N, BniB03g062510.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq03G2492 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl03G2629 |
| Cymodoceaceae | Cymodocea nodosa | 2 | gene.Cymno01g06690, gene.Cymno06g07990 |
| Dunaliellaceae | Dunaliella salina | 1 | Dusal.0163s00012.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate04g09180 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG07.118 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00000999 |
| Plumbaginaceae | Limonium bicolor | 1 | Lb6G31999 |
| Poaceae | Echinochloa crus-galli | 6 | AH06.538, AH07.3799, BH06.584, BH07.3621, CH06.597 ... |
| Poaceae | Eleusine coracana subsp. coracana | 4 | gene-QOZ80_2AG0149180, gene-QOZ80_2BG0205090 ... |
| Poaceae | Hordeum vulgare | 3 | HORVU.MOREX.r3.6HG0624910.1, HORVU.MOREX.r3.6HG0625080.1 ... |
| Poaceae | Lolium multiflorum | 2 | gene-QYE76_026256, gene-QYE76_028259 |
| Poaceae | Oryza coarctata | 3 | Oco04G024840, Oco11G003690, Oco12G003690 |
| Poaceae | Oryza sativa | 2 | LOC_Os02g55480.1, LOC_Os06g08250.1 |
| Poaceae | Paspalum vaginatum | 2 | gene-BS78_04G307400, gene-BS78_10G063800 |
| Poaceae | Puccinellia tenuiflora | 4 | Pt_Chr0206249, Pt_Chr0207122, Pt_Chr0405272, Pt_Chr0602175 |
| Poaceae | Sporobolus alterniflorus | 2 | Chr11G021590, Chr11G021600 |
| Poaceae | Thinopyrum elongatum | 2 | Tel6E01G643200, Tel7E01G295400 |
| Poaceae | Triticum dicoccoides | 5 | gene_TRIDC6AG054130, gene_TRIDC6BG063140 ... |
| Poaceae | Triticum aestivum | 7 | TraesCS6A02G361600.2, TraesCS6B02G395000.1 ... |
| Poaceae | Zea mays | 2 | Zm00001eb257950_P001, Zm00001eb374880_P002 |
| Poaceae | Zoysia japonica | 2 | nbis-gene-39912, nbis-gene-5026 |
| Poaceae | Zoysia macrostachya | 2 | Zma_g17338, Zma_g29221 |
| Portulacaceae | Portulaca oleracea | 1 | evm.TU.LG04.1106 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc03g12160 |
| Rhizophoraceae | Bruguiera sexangula | 2 | evm.TU.Scaffold_10_RagTag.1, evm.TU.Scaffold_4_RagTag.2229 |
| Rhizophoraceae | Carallia pectinifolia | 2 | nbisL1-mrna-13904, nbisL1-mrna-25244 |
| Rhizophoraceae | Ceriops tagal | 2 | nbisL1-mrna-21293, nbisL1-mrna-4321 |
| Rhizophoraceae | Ceriops zippeliana | 2 | nbisL1-mrna-16548, nbisL1-mrna-4981 |
| Rhizophoraceae | Kandelia candel | 2 | evm.TU.utg000008l.1309, evm.TU.utg000033l.75 |
| Rhizophoraceae | Kandelia obovata | 2 | Maker00000927, Maker00015064 |
| Rhizophoraceae | Rhizophora apiculata | 2 | nbisL1-mrna-16699, nbisL1-mrna-1874 |
| Rhizophoraceae | Rhizophora mangle | 2 | nbisL1-mrna-14508, nbisL1-mrna-22265 |
| Salicaceae | Populus euphratica | 2 | populus_peu05656, populus_peu12287 |
| Solanaceae | Lycium barbarum | 5 | gene-LOC132602104, gene-LOC132603071, gene-LOC132603072 ... |
| Solanaceae | Solanum chilense | 2 | SOLCI004796600, SOLCI004796700 |
| Solanaceae | Solanum pennellii | 4 | gene-LOC107021805, gene-LOC107024256, gene-LOC107024276 ... |
| Tamaricaceae | Reaumuria soongarica | 2 | STRG.12336_chr02_-, gene_8146 |
| Tamaricaceae | Tamarix chinensis | 1 | TC10G1084 |