Basic Information
Locus ID:
Ag10G00144
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
RING-type E3 ubiquitin transferase
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr10 | 44184990 | 44186953 | + | Ag10G00144 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 6.54 | 57,715.61 Da | 50.06 | 90.06 | -0.27 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd16453 | RING-Ubox | 35 | 67 | 2.95524E-11 | - |
| Pfam | PF00514 | Armadillo/beta-catenin-like repeat | 408 | 448 | 2.1E-4 | IPR000225 |
| Pfam | PF00514 | Armadillo/beta-catenin-like repeat | 286 | 324 | 1.6E-5 | IPR000225 |
| Pfam | PF04564 | U-box domain | 31 | 99 | 2.9E-10 | IPR003613 |
| SUPERFAMILY | SSF57850 | RING/U-box | 16 | 102 | 1.5E-17 | - |
| SUPERFAMILY | SSF48371 | ARM repeat | 218 | 488 | 2.92E-35 | IPR016024 |
| Gene3D | G3DSA:1.25.10.10 | - | 215 | 493 | 1.3E-40 | IPR011989 |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 10 | 104 | 3.1E-13 | IPR013083 |
| SMART | SM00185 | arm_5 | 285 | 325 | 0.52 | IPR000225 |
| SMART | SM00185 | arm_5 | 326 | 366 | 69.0 | IPR000225 |
| SMART | SM00185 | arm_5 | 367 | 405 | 32.0 | IPR000225 |
| SMART | SM00185 | arm_5 | 406 | 448 | 0.025 | IPR000225 |
| SMART | SM00504 | Ubox_2 | 33 | 96 | 2.9E-14 | IPR003613 |
| SMART | SM00185 | arm_5 | 244 | 284 | 310.0 | IPR000225 |
| ProSiteProfiles | PS51698 | U-box domain profile. | 29 | 103 | 26.627323 | IPR003613 |
| ProSiteProfiles | PS50176 | Armadillo/plakoglobin ARM repeat profile. | 417 | 447 | 9.0124 | IPR000225 |
| ProSiteProfiles | PS50176 | Armadillo/plakoglobin ARM repeat profile. | 296 | 333 | 9.2924 | IPR000225 |
| ProSiteProfiles | PS51257 | Prokaryotic membrane lipoprotein lipid attachment site profile. | 1 | 28 | 5.0 | - |
Gene Ontology
Biological Process:
Molecular Function:
KEGG Pathway
KO Term:
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT5G65200.1 | plant U-box 38. Encodes a protein containing a U-box and an ARM domain. This protein has E3 ubiquitin ligase activity based on in vitro assays. | 0 |
| RefSeq | XP_017228179.1 | PREDICTED: U-box domain-containing protein 38-like [Daucus carota subsp. sativus] | 0 |
| Q9FJP6 | U-box domain-containing protein 38 OS=Arabidopsis thaliana OX=3702 GN=PUB38 PE=1 SV=1 | 0 | |
| TrEMBL | A0A175Y9B0 | RING-type E3 ubiquitin transferase OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_000285 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 7.147132 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 6.144131 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 2.997503 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 3.048041 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 4.013184 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 2.516804 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 3.409155 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 1.793884 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 20.243462 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 21.497807 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 18.853004 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 20.130581 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 17.427742 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 15.435225 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 4.89807 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 4.357168 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 2.495765 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 5.69345 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 4.920382 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 14.548332 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 12.196629 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 2.952905 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 4.400209 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 5.201147 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 4.272782 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 3.870291 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 1.788763 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 2.451752 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 2.218321 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 3.999167 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 5.54502 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 5.710907 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 30.224201 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 16.614769 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 39.419971 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 24.85058 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 12.611755 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 19.311647 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 5.061159 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 6.881227 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 2.388992 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 37.140434 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 24.432783 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 4.064082 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 3.141632 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 37.193172 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 2.81096 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 12.622878 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 8.54619 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 7.831606 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 5 | jg17823, jg18688, jg25828, jg27484, jg30492 |
| Aizoaceae | Mesembryanthemum crystallinum | 2 | gene_13718, gene_7865 |
| Amaranthaceae | Atriplex hortensis | 2 | Ah001135, Ah033677 |
| Amaranthaceae | Beta vulgaris | 2 | BVRB_2g037540, BVRB_5g116300 |
| Amaranthaceae | Salicornia bigelovii | 4 | Sbi_jg19949, Sbi_jg30465, Sbi_jg44477, Sbi_jg58784 |
| Amaranthaceae | Salicornia europaea | 2 | Seu_jg17493, Seu_jg28653 |
| Amaranthaceae | Suaeda aralocaspica | 2 | GOSA_00015004, GOSA_00024087 |
| Amaranthaceae | Suaeda glauca | 4 | Sgl55292, Sgl60558, Sgl63765, Sgl68256 |
| Amaranthaceae | Chenopodium album | 6 | gene:ENSEOMG00000005002, gene:ENSEOMG00000017424 ... |
| Amaranthaceae | Chenopodium quinoa | 4 | CQ.Regalona.r1.2AG0009190, CQ.Regalona.r1.2BG0011380 ... |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30195770 |
| Apiaceae | Apium graveolens | 3 | Ag10G00144, Ag3G00818, AgUnG00009 |
| Arecaceae | Cocos nucifera | 3 | COCNU_01G009590, COCNU_11G008660, COCNU_16G004050 |
| Arecaceae | Phoenix dactylifera | 1 | gene-LOC103710017 |
| Asparagaceae | Asparagus officinalis | 2 | AsparagusV1_03.3197.V1.1, AsparagusV1_08.2483.V1.1 |
| Asteraceae | Flaveria trinervia | 3 | Ftri18G12237, Ftri1G07733, Ftri1G19200 |
| Brassicaceae | Arabidopsis thaliana | 4 | AT3G47820.1, AT5G40140.1, AT5G62560.1, AT5G65200.1 |
| Brassicaceae | Eutrema salsugineum | 4 | Thhalv10003926m.g.v1.0, Thhalv10003938m.g.v1.0 ... |
| Brassicaceae | Schrenkiella parvula | 4 | Sp2g25730.v2.2, Sp2g28280.v2.2, Sp5g14140.v2.2 ... |
| Brassicaceae | Brassica nigra | 10 | BniB01g026860.2N, BniB04g000950.2N, BniB04g002160.2N ... |
| Casuarinaceae | Casuarina equisetifolia | 2 | Ceq02G1787, Ceq04G1871 |
| Casuarinaceae | Casuarina glauca | 2 | Cgl02G1847, Cgl04G2056 |
| Cymodoceaceae | Cymodocea nodosa | 2 | gene.Cymno01g03320, gene.Cymno15g06150 |
| Hydrocharitaceae | Thalassia testudinum | 2 | gene.Thate04g28300, gene.Thate09g11200 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 1 | nbisL1-mrna-10304 |
| Nitrariaceae | Nitraria sibirica | 2 | evm.TU.LG02.100, evm.TU.LG10.813 |
| Plantaginaceae | Plantago ovata | 2 | Pov_00022055, Pov_00023374 |
| Plumbaginaceae | Limonium bicolor | 1 | Lb1G04662 |
| Poaceae | Echinochloa crus-galli | 5 | AH03.1811, BH03.1950, BH06.1000, BH08.1394, CH06.1097 |
| Poaceae | Eleusine coracana subsp. coracana | 6 | gene-QOZ80_6AG0515250, gene-QOZ80_6AG0534280 ... |
| Poaceae | Hordeum vulgare | 5 | HORVU.MOREX.r3.2HG0189820.1.CDS1 ... |
| Poaceae | Lolium multiflorum | 6 | gene-QYE76_004861, gene-QYE76_024811, gene-QYE76_028998 ... |
| Poaceae | Oryza coarctata | 7 | Oco11G006340, Oco11G006350, Oco12G006360, Oco15G008460 ... |
| Poaceae | Oryza sativa | 4 | LOC_Os06g13080.1, LOC_Os06g13090.1, LOC_Os08g32610.1 ... |
| Poaceae | Paspalum vaginatum | 4 | gene-BS78_02G172900, gene-BS78_02G173100 ... |
| Poaceae | Puccinellia tenuiflora | 1 | Pt_Chr0104705 |
| Poaceae | Sporobolus alterniflorus | 9 | Chr10G010780, Chr11G011640, Chr14G004740, Chr14G013320 ... |
| Poaceae | Thinopyrum elongatum | 3 | Tel5E01G336500, Tel7E01G357100, Tel7E01G411900 |
| Poaceae | Triticum dicoccoides | 6 | gene_TRIDC5AG032470, gene_TRIDC5BG034320 ... |
| Poaceae | Triticum aestivum | 9 | TraesCS5A02G201400.1.cds1, TraesCS5B02G200100.1.cds1 ... |
| Poaceae | Zea mays | 4 | Zm00001eb042000_P001, Zm00001eb099030_P001 ... |
| Poaceae | Zoysia japonica | 6 | nbis-gene-19967, nbis-gene-30941, nbis-gene-30942 ... |
| Poaceae | Zoysia macrostachya | 5 | Zma_g19655, Zma_g22999, Zma_g30259, Zma_g31661, Zma_g32461 |
| Portulacaceae | Portulaca oleracea | 7 | evm.TU.LG01.1255, evm.TU.LG01.2538, evm.TU.LG02.883 ... |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc03g06760 |
| Rhizophoraceae | Bruguiera sexangula | 3 | evm.TU.Scaffold_11_RagTag.979, evm.TU.Scaffold_3_RagTag.1848 ... |
| Rhizophoraceae | Carallia pectinifolia | 4 | nbisL1-mrna-14660, nbisL1-mrna-15018, nbisL1-mrna-2296 ... |
| Rhizophoraceae | Ceriops tagal | 3 | nbisL1-mrna-16744, nbisL1-mrna-5710, nbisL1-mrna-666 |
| Rhizophoraceae | Ceriops zippeliana | 3 | nbisL1-mrna-12548, nbisL1-mrna-166, nbisL1-mrna-3026 |
| Rhizophoraceae | Kandelia candel | 3 | add.evm.TU.utg000010l.33, add.evm.TU.utg000011l.46 ... |
| Rhizophoraceae | Rhizophora apiculata | 4 | nbisL1-mrna-17055, nbisL1-mrna-19258, nbisL1-mrna-21481 ... |
| Rhizophoraceae | Rhizophora mangle | 3 | nbisL1-mrna-17408, nbisL1-mrna-18352, nbisL1-mrna-8619 |
| Salicaceae | Populus euphratica | 2 | populus_peu28585, populus_peu30052 |
| Solanaceae | Lycium barbarum | 3 | gene-LOC132620424, gene-LOC132623204, gene-LOC132632753 |
| Solanaceae | Solanum chilense | 2 | SOLCI000409600, SOLCI002323700 |
| Solanaceae | Solanum pennellii | 2 | gene-LOC107008818, gene-LOC107015440 |
| Tamaricaceae | Reaumuria soongarica | 2 | STRG.15499_chr06_-, gene_4802 |
| Tamaricaceae | Tamarix chinensis | 2 | TC02G3206, TC09G1559 |
| Zosteraceae | Zostera marina | 1 | Zosma03g04140.v3.1 |