Basic Information
Locus ID:
Ag9G00220
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 |
|---|---|---|---|---|
| chr9 | 8738893 | 8742388 | - | Ag9G00220 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 7.66 | 32,223.41 Da | 58.10 | 66.74 | -0.78 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| Pfam | PF13639 | Ring finger domain | 231 | 273 | 5.6E-11 | IPR001841 |
| SUPERFAMILY | SSF57850 | RING/U-box | 231 | 279 | 5.65E-19 | - |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 187 | 277 | 1.6E-17 | IPR013083 |
| SMART | SM01197 | FANCL_C_2 | 228 | 281 | 0.0054 | - |
| SMART | SM00184 | ring_2 | 232 | 272 | 3.5E-5 | IPR001841 |
| ProSiteProfiles | PS50089 | Zinc finger RING-type profile. | 232 | 273 | 12.489278 | IPR001841 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 56 | 83 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 36 | 96 | - | - |
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT1G49850.1 | RING/U-box superfamily protein. | 0 |
| RefSeq | XP_017254877.1 | PREDICTED: probable E3 ubiquitin-protein ligase RHY1A [Daucus carota subsp. sativus] | 0 |
| Q852U6 | Probable E3 ubiquitin-protein ligase RHY1A OS=Arabidopsis thaliana OX=3702 GN=RHY1A PE=1 SV=1 | 0 | |
| TrEMBL | A0A6L5B8A7 | RING-type domain-containing protein OS=Apium graveolens OX=4045 GN=AG4045_007849 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 27.199326 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 23.902618 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 22.903574 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 22.580893 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 24.082067 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 26.64695 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 25.477859 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 21.595579 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 14.557112 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 14.572528 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 11.882259 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 17.02 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 16.80262 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 13.603805 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 23.491201 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 28.140615 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 28.894985 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 33.734818 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 30.902826 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 23.332569 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 25.960756 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 31.584913 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 28.285196 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 37.308773 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 38.476807 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 24.947346 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 35.947132 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 30.30546 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 36.77282 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 42.81543 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 49.229469 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 45.668987 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 76.491478 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 40.674149 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 69.384682 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 41.409256 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 53.812611 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 50.777641 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 27.385744 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 25.531044 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 26.80755 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 37.290489 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 43.486637 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 63.416515 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 56.645859 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 44.220982 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 45.922428 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 48.868252 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 40.831753 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 49.709602 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 1 | jg1148 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_9486 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah015885 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_8g190440 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg25307, Sbi_jg9156 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg19432 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00011193 |
| Amaranthaceae | Suaeda glauca | 4 | Sgl42987, Sgl47803, Sgl47809, Sgl47834 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000009785, gene:ENSEOMG00000034071 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.8AG0012840, CQ.Regalona.r1.8BG0014200 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30104620 |
| Apiaceae | Apium graveolens | 2 | Ag9G00220, AgUnG01196 |
| Arecaceae | Cocos nucifera | 1 | COCNU_14G010650 |
| Arecaceae | Phoenix dactylifera | 2 | gene-LOC103705266, gene-LOC103709207 |
| Asparagaceae | Asparagus officinalis | 3 | AsparagusV1_03.2153.V1.1, AsparagusV1_07.2923.V1.1 ... |
| Asteraceae | Flaveria trinervia | 2 | Ftri15G25557, Ftri4G15893 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT1G49850.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10011738m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp1g36740.v2.2 |
| Brassicaceae | Brassica nigra | 2 | BniB06g033720.2N, BniB07g005640.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq09G0298 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl09G0335 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno11g04210 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate09g05240 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG08.576 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00012193 |
| Poaceae | Echinochloa crus-galli | 3 | AH01.4584, BH01.2543, Contig181.7 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_3AG0238090, gene-QOZ80_3BG0289930 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.4HG0398100.1 |
| Poaceae | Lolium multiflorum | 1 | gene-QYE76_070036 |
| Poaceae | Oryza coarctata | 2 | Oco05G005970, Oco06G006120 |
| Poaceae | Oryza sativa | 1 | LOC_Os03g10890.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_01G437000 |
| Poaceae | Puccinellia tenuiflora | 1 | Pt_Chr0101610 |
| Poaceae | Sporobolus alterniflorus | 2 | Chr05G021620, Chr07G009590 |
| Poaceae | Thinopyrum elongatum | 1 | Tel4E01G432800 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC4AG006870, gene_TRIDC4BG044280 |
| Poaceae | Triticum aestivum | 3 | TraesCS4A02G049500.1, TraesCS4B02G255400.1 ... |
| Poaceae | Zea mays | 2 | Zm00001eb007270_P001, Zm00001eb400600_P001 |
| Poaceae | Zoysia japonica | 1 | nbis-gene-4115 |
| Poaceae | Zoysia macrostachya | 2 | Zma_g1826, Zma_g4183 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG08.1544, evm.TU.LG22.437 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc04g08460 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_1_RagTag.2040 |
| Rhizophoraceae | Carallia pectinifolia | 1 | nbisL1-mrna-5846 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-6669 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-3491 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000016l.241 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00016357 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-4803 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-13981 |
| Salicaceae | Populus euphratica | 3 | populus_peu01576, populus_peu01592, populus_peu36242 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132598961 |
| Solanaceae | Solanum chilense | 1 | SOLCI003635400 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107009405 |
| Tamaricaceae | Reaumuria soongarica | 1 | STRG.12601_chr02_- |
| Tamaricaceae | Tamarix chinensis | 1 | TC10G0768 |
| Zosteraceae | Zostera marina | 1 | Zosma01g01450.v3.1 |