Basic Information
Locus ID:
Ag8G01841
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
Modified RING finger domain
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr8 | 247348396 | 247352004 | + | Ag8G01841 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 8.49 | 70,716.04 Da | 44.05 | 100.12 | -0.17 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd16664 | RING-Ubox_PUB | 278 | 320 | 4.83822E-26 | - |
| Pfam | PF00514 | Armadillo/beta-catenin-like repeat | 404 | 442 | 2.6E-5 | IPR000225 |
| Pfam | PF04564 | U-box domain | 274 | 344 | 9.3E-20 | IPR003613 |
| Pfam | PF00514 | Armadillo/beta-catenin-like repeat | 486 | 524 | 4.6E-9 | IPR000225 |
| SUPERFAMILY | SSF48371 | ARM repeat | 373 | 647 | 1.36E-46 | IPR016024 |
| SUPERFAMILY | SSF57850 | RING/U-box | 273 | 348 | 1.69E-29 | - |
| Gene3D | G3DSA:1.25.10.10 | - | 347 | 653 | 1.2E-53 | IPR011989 |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 271 | 346 | 1.9E-28 | IPR013083 |
| SMART | SM00185 | arm_5 | 403 | 443 | 7.4 | IPR000225 |
| SMART | SM00185 | arm_5 | 567 | 607 | 8.2 | IPR000225 |
| SMART | SM00185 | arm_5 | 609 | 649 | 34.0 | IPR000225 |
| SMART | SM00185 | arm_5 | 526 | 566 | 36.0 | IPR000225 |
| SMART | SM00185 | arm_5 | 444 | 484 | 0.96 | IPR000225 |
| SMART | SM00185 | arm_5 | 485 | 525 | 2.3E-5 | IPR000225 |
| SMART | SM00504 | Ubox_2 | 277 | 340 | 7.5E-32 | IPR003613 |
| ProSiteProfiles | PS50176 | Armadillo/plakoglobin ARM repeat profile. | 414 | 456 | 9.4324 | IPR000225 |
| ProSiteProfiles | PS50176 | Armadillo/plakoglobin ARM repeat profile. | 455 | 497 | 9.8174 | IPR000225 |
| ProSiteProfiles | PS50176 | Armadillo/plakoglobin ARM repeat profile. | 496 | 538 | 9.5374 | IPR000225 |
| ProSiteProfiles | PS51698 | U-box domain profile. | 273 | 347 | 44.707935 | IPR003613 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 206 | 226 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 251 | 272 | - | - |
| Coils | Coil | Coil | 140 | 160 | - | - |
Gene Ontology
Biological Process:
Molecular Function:
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT1G71020.1 | ARM repeat superfamily protein. | 0 |
| RefSeq | XP_017223515.1 | PREDICTED: U-box domain-containing protein 10-like [Daucus carota subsp. sativus] | 0 |
| Q9C9A6 | U-box domain-containing protein 10 OS=Arabidopsis thaliana OX=3702 GN=PUB10 PE=2 SV=1 | 0 | |
| TrEMBL | A0A175YRR1 | RING-type E3 ubiquitin transferase OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_026770 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 2.883279 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 4.089522 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 5.009535 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 6.030344 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 6.10475 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 3.167171 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 3.657804 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 1.162247 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 28.857452 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 28.466305 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 29.908487 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 16.7959 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 24.980375 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 21.538441 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 179.676758 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 201.721954 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 115.278549 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 132.841995 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 167.641312 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 211.783096 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 88.067207 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 81.114487 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 114.827034 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 140.360336 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 122.960297 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 77.656303 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 82.289665 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 49.077686 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 92.606781 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 31.077881 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 48.499626 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 40.959766 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 19.517412 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 9.393701 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 17.878231 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 8.032723 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 19.440414 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 14.215868 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 44.776741 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 70.14286 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 37.213379 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 22.664015 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 98.414444 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 9.682252 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 5.479472 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 15.142654 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 21.809763 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 10.224811 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 13.972281 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 11.422113 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 3 | jg35008, jg5192, jg7314 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_18581 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah025332 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_6g144830 |
| Amaranthaceae | Salicornia bigelovii | 3 | Sbi_jg12914, Sbi_jg52950, Sbi_jg52951 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg8905 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00009008 |
| Amaranthaceae | Suaeda glauca | 7 | Sgl31132, Sgl32514, Sgl32515, Sgl36486, Sgl37776, Sgl37777 ... |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000002705, gene:ENSEOMG00000003094 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.6AG0012350, CQ.Regalona.r1.6BG0012950 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30217060 |
| Apiaceae | Apium graveolens | 4 | Ag11G03910, Ag5G01966, Ag6G00551, Ag8G01841 |
| Arecaceae | Cocos nucifera | 1 | COCNU_03G010220 |
| Arecaceae | Phoenix dactylifera | 1 | gene-LOC103695610 |
| Asparagaceae | Asparagus officinalis | 1 | AsparagusV1_06.500.V1.1 |
| Asteraceae | Flaveria trinervia | 2 | Ftri13G03791, Ftri8G13159 |
| Brassicaceae | Arabidopsis thaliana | 2 | AT1G23030.1, AT1G71020.1 |
| Brassicaceae | Eutrema salsugineum | 2 | Thhalv10007104m.g.v1.0, Thhalv10018269m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 2 | Sp1g20480.v2.2, Sp5g26190.v2.2 |
| Brassicaceae | Brassica nigra | 3 | BniB03g030610.2N, BniB03g048920.2N, BniB04g038270.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq09G0910 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl09G0986 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno11g08420 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG03.1412 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00021569 |
| Plumbaginaceae | Limonium bicolor | 2 | Lb1G01465, Lb2G13229 |
| Poaceae | Echinochloa crus-galli | 3 | AH07.3353, BH07.3179, CH07.3239 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_2AG0144450, gene-QOZ80_2BG0199920 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.6HG0612510.1 |
| Poaceae | Lolium multiflorum | 1 | gene-QYE76_025079 |
| Poaceae | Oryza coarctata | 2 | Oco03G020820, Oco04G021440 |
| Poaceae | Oryza sativa | 1 | LOC_Os02g49950.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_04G267000 |
| Poaceae | Puccinellia tenuiflora | 1 | Pt_Chr0203429 |
| Poaceae | Sporobolus alterniflorus | 2 | Chr09G020900, Chr13G005150 |
| Poaceae | Thinopyrum elongatum | 1 | Tel6E01G533800 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC6AG044730, gene_TRIDC6BG052360 |
| Poaceae | Triticum aestivum | 3 | TraesCS6A02G293600.1, TraesCS6B02G324000.1 ... |
| Poaceae | Zea mays | 1 | Zm00001eb190130_P001 |
| Poaceae | Zoysia japonica | 2 | nbis-gene-21941, nbis-gene-21942 |
| Poaceae | Zoysia macrostachya | 1 | Zma_g17081 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG13.827, evm.TU.LG21.485 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc08g00600 |
| Rhizophoraceae | Bruguiera sexangula | 2 | evm.TU.Scaffold_15_RagTag.162, evm.TU.Scaffold_17_RagTag.829 |
| Rhizophoraceae | Carallia pectinifolia | 1 | nbisL1-mrna-23543 |
| Rhizophoraceae | Ceriops tagal | 2 | nbisL1-mrna-11779, nbisL1-mrna-16846 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-17499 |
| Rhizophoraceae | Kandelia candel | 2 | evm.TU.utg000001l.104, evm.TU.utg000013l.465 |
| Rhizophoraceae | Kandelia obovata | 2 | Maker00004452, Maker00004586 |
| Rhizophoraceae | Rhizophora apiculata | 2 | nbisL1-mrna-10858, nbisL1-mrna-11620 |
| Rhizophoraceae | Rhizophora mangle | 2 | nbisL1-mrna-14209, nbisL1-mrna-2766 |
| Salicaceae | Populus euphratica | 2 | populus_peu07148, populus_peu21130 |
| Solanaceae | Lycium barbarum | 2 | gene-LOC132613646, gene-LOC132641621 |
| Solanaceae | Solanum chilense | 2 | SOLCI005517900, SOLCI005631600 |
| Solanaceae | Solanum pennellii | 2 | gene-LOC107017697, gene-LOC107020839 |
| Tamaricaceae | Reaumuria soongarica | 1 | STRG.9235_chr03_+ |
| Tamaricaceae | Tamarix chinensis | 2 | TC04G1243, TC11G1005 |