Basic Information
Locus ID:
Ag2G01176
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 |
|---|---|---|---|---|
| chr2 | 72489595 | 72492625 | + | Ag2G01176 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 7.59 | 52,194.36 Da | 40.52 | 95.67 | -0.30 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd16664 | RING-Ubox_PUB | 87 | 129 | 1.17035E-24 | - |
| Pfam | PF00514 | Armadillo/beta-catenin-like repeat | 298 | 334 | 1.3E-4 | IPR000225 |
| Pfam | PF04564 | U-box domain | 84 | 153 | 1.8E-20 | IPR003613 |
| SUPERFAMILY | SSF48371 | ARM repeat | 182 | 457 | 7.68E-31 | IPR016024 |
| SUPERFAMILY | SSF57850 | RING/U-box | 78 | 157 | 1.53E-27 | - |
| Gene3D | G3DSA:1.25.10.10 | - | 174 | 465 | 2.9E-28 | IPR011989 |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 65 | 161 | 1.4E-26 | IPR013083 |
| SMART | SM00504 | Ubox_2 | 86 | 149 | 1.1E-28 | IPR003613 |
| ProSiteProfiles | PS51698 | U-box domain profile. | 82 | 156 | 38.312492 | IPR003613 |
| Coils | Coil | Coil | 17 | 37 | - | - |
Gene Ontology
Biological Process:
Molecular Function:
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT3G07360.1 | plant U-box 9. 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_017248993.1 | PREDICTED: U-box domain-containing protein 9-like isoform X1 [Daucus carota subsp. sativus] | 0 |
| Q9SRT0 | U-box domain-containing protein 9 OS=Arabidopsis thaliana OX=3702 GN=PUB9 PE=1 SV=1 | 0 | |
| TrEMBL | A0A164Z5Y7 | RING-type E3 ubiquitin transferase OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_018630 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 17.038353 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 20.120543 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 8.674062 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 9.29677 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 10.001454 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 2.478865 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 4.643064 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 2.407297 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 5.682384 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 7.339502 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 5.79228 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 2.546339 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 4.51237 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 3.459615 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 54.158867 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 47.787624 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 22.646404 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 19.365202 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 31.633133 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 17.95928 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 9.139802 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 15.351719 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 13.407619 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 15.47849 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 17.118864 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 14.441929 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 10.748016 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 15.945349 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 12.664894 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 2.078832 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 5.02059 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 4.084124 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 0.633121 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 1.692945 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 0.279676 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 0.891 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 0.337488 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 0.823246 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 2.100392 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 3.651392 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 4.752899 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 1.91502 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 7.097034 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 4.53184 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 3.467419 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 2.297199 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 14.138358 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 10.901854 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 6.149494 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 5.714566 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 4 | jg36079, jg38114, jg8075, jg9833 |
| Aizoaceae | Mesembryanthemum crystallinum | 2 | gene_10362, gene_6514 |
| Amaranthaceae | Atriplex hortensis | 2 | Ah005623, Ah028389 |
| Amaranthaceae | Beta vulgaris | 3 | BVRB_4g077010, BVRB_7g164050, BVRB_9g211050 |
| Amaranthaceae | Salicornia bigelovii | 4 | Sbi_jg17277, Sbi_jg26632, Sbi_jg33930, Sbi_jg61901 |
| Amaranthaceae | Salicornia europaea | 2 | Seu_jg15149, Seu_jg532 |
| Amaranthaceae | Suaeda aralocaspica | 2 | GOSA_00011842, GOSA_00015445 |
| Amaranthaceae | Suaeda glauca | 4 | Sgl73932, Sgl73937, Sgl77444, Sgl79881 |
| Amaranthaceae | Chenopodium album | 4 | gene:ENSEOMG00000007517, gene:ENSEOMG00000012313 ... |
| Amaranthaceae | Chenopodium quinoa | 4 | CQ.Regalona.r1.4AG0007020, CQ.Regalona.r1.4BG0007220 ... |
| Anacardiaceae | Pistacia vera | 2 | pistato.v30013850, pistato.v30090300 |
| Apiaceae | Apium graveolens | 3 | Ag11G03080, Ag2G01176, Ag7G00094 |
| Arecaceae | Cocos nucifera | 3 | COCNU_02G015180, scaffold000218G000010 ... |
| Arecaceae | Phoenix dactylifera | 3 | gene-LOC103698710, gene-LOC103722515, gene-LOC103722520 |
| Asparagaceae | Asparagus officinalis | 2 | AsparagusV1_09.1609.V1.1, AsparagusV1_09.1610.V1.1 |
| Asteraceae | Flaveria trinervia | 4 | Ftri10G21083, Ftri11G11503, Ftri12G27566, Ftri9G28589 |
| Brassicaceae | Arabidopsis thaliana | 4 | AT3G07360.1, AT5G18320.1, AT5G18330.1, AT5G18340.1 |
| Brassicaceae | Eutrema salsugineum | 2 | Thhalv10015380m.g.v1.0, Thhalv10020790m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 4 | Sp3g06300.v2.2, Sp6g25970.v2.2, Sp6g25980.v2.2 ... |
| Brassicaceae | Brassica nigra | 4 | BniB01g056550.2N, BniB02g044480.2N, BniB03g024060.2N ... |
| Casuarinaceae | Casuarina equisetifolia | 2 | Ceq06G2199, Ceq08G1535 |
| Casuarinaceae | Casuarina glauca | 2 | Cgl06G2318, Cgl08G1565 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno08g01370 |
| Dunaliellaceae | Dunaliella salina | 1 | Dusal.0073s00017.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 2 | gene.Thate04g22260, gene.Thate09g00170 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 2 | nbisL1-mrna-6410, nbisL1-mrna-9774 |
| Nitrariaceae | Nitraria sibirica | 2 | evm.TU.LG03.2121, evm.TU.LG04.1436 |
| Plumbaginaceae | Limonium bicolor | 2 | Lb5G28692, Lb5G28735 |
| Poaceae | Echinochloa crus-galli | 6 | AH07.1776, AH09.643, BH07.1763, BH09.591, CH07.1614 ... |
| Poaceae | Eleusine coracana subsp. coracana | 4 | gene-QOZ80_2AG0131000, gene-QOZ80_2BG0186350 ... |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.2HG0160480.1 |
| Poaceae | Lolium multiflorum | 2 | gene-QYE76_043438, gene-QYE76_046692 |
| Poaceae | Oryza coarctata | 4 | Oco03G010350, Oco04G010480, Oco07G003200, Oco08G003500 |
| Poaceae | Oryza sativa | 3 | LOC_Os02g28720.1, LOC_Os04g28100.1, LOC_Os09g07490.1 |
| Poaceae | Paspalum vaginatum | 2 | gene-BS78_04G136100, gene-BS78_06G053000 |
| Poaceae | Puccinellia tenuiflora | 2 | Pt_Chr0306700, Pt_Chr0503725 |
| Poaceae | Sporobolus alterniflorus | 7 | Chr06G011560, Chr13G012540, Chr15G013280, Chr23G015600 ... |
| Poaceae | Thinopyrum elongatum | 1 | Tel2E01G497100 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC2AG039890, gene_TRIDC2BG043020 |
| Poaceae | Triticum aestivum | 3 | TraesCS2A02G276400.1, TraesCS2B02G294100.1 ... |
| Poaceae | Zea mays | 1 | Zm00001eb241150_P001 |
| Poaceae | Zoysia japonica | 2 | nbis-gene-20974, nbis-gene-7974 |
| Poaceae | Zoysia macrostachya | 2 | Zma_g13521, Zma_g21106 |
| Portulacaceae | Portulaca oleracea | 6 | evm.TU.LG03.1088, evm.TU.LG08.754, evm.TU.LG12.646 ... |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc05g03500 |
| Rhizophoraceae | Bruguiera sexangula | 4 | evm.TU.Scaffold_1_RagTag.379, evm.TU.Scaffold_2_RagTag.1870 ... |
| Rhizophoraceae | Carallia pectinifolia | 5 | nbisL1-mrna-12225, nbisL1-mrna-20689, nbisL1-mrna-20801 ... |
| Rhizophoraceae | Ceriops tagal | 4 | nbisL1-mrna-12159, nbisL1-mrna-2008, nbisL1-mrna-4446 ... |
| Rhizophoraceae | Ceriops zippeliana | 4 | nbisL1-mrna-10796, nbisL1-mrna-13839, nbisL1-mrna-21504 ... |
| Rhizophoraceae | Kandelia candel | 4 | evm.TU.utg000003l.957, evm.TU.utg000006l.1004 ... |
| Rhizophoraceae | Kandelia obovata | 4 | Maker00005437, Maker00009239, Maker00011315, Maker00013419 |
| Rhizophoraceae | Rhizophora apiculata | 4 | nbisL1-mrna-10539, nbisL1-mrna-12870, nbisL1-mrna-13941 ... |
| Rhizophoraceae | Rhizophora mangle | 5 | nbisL1-mrna-15660, nbisL1-mrna-16314, nbisL1-mrna-4571 ... |
| Salicaceae | Populus euphratica | 3 | populus_peu16023, populus_peu19452, populus_peu30858 |
| Solanaceae | Lycium barbarum | 2 | gene-LOC132609854, gene-LOC132613836 |
| Solanaceae | Solanum chilense | 3 | SOLCI000845400, SOLCI000845500, SOLCI005949900 |
| Solanaceae | Solanum pennellii | 3 | gene-LOC107016825, gene-LOC107017532, gene-LOC107031669 |
| Tamaricaceae | Reaumuria soongarica | 2 | STRG.2211_chr01_+, gene_4777 |
| Tamaricaceae | Tamarix chinensis | 3 | TC01G0777, TC02G1519, TC02G3136 |
| Zosteraceae | Zostera marina | 1 | Zosma04g01260.v3.1 |