Basic Information
Locus ID:
Ag8G00030
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
U-box domain-containing protein 16
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr8 | 1059519 | 1061947 | - | Ag8G00030 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 8.81 | 75,200.04 Da | 49.13 | 103.23 | -0.07 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd16664 | RING-Ubox_PUB | 278 | 320 | 9.42146E-26 | - |
| Pfam | PF00514 | Armadillo/beta-catenin-like repeat | 405 | 444 | 1.2E-8 | IPR000225 |
| Pfam | PF04564 | U-box domain | 275 | 345 | 4.6E-20 | IPR003613 |
| SUPERFAMILY | SSF57850 | RING/U-box | 266 | 346 | 1.85E-28 | - |
| SUPERFAMILY | SSF48371 | ARM repeat | 375 | 650 | 8.47E-27 | IPR016024 |
| Gene3D | G3DSA:1.20.930.20 | - | 54 | 144 | 4.4E-6 | IPR036537 |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 257 | 353 | 3.0E-28 | IPR013083 |
| Gene3D | G3DSA:1.25.10.10 | - | 359 | 664 | 1.4E-27 | IPR011989 |
| SMART | SM00185 | arm_5 | 405 | 445 | 8.6E-6 | IPR000225 |
| SMART | SM00185 | arm_5 | 567 | 608 | 63.0 | IPR000225 |
| SMART | SM00504 | Ubox_2 | 277 | 340 | 1.0E-33 | IPR003613 |
| ProSiteProfiles | PS50176 | Armadillo/plakoglobin ARM repeat profile. | 416 | 458 | 12.0224 | IPR000225 |
| ProSiteProfiles | PS51698 | U-box domain profile. | 273 | 347 | 40.585838 | IPR003613 |
| Coils | Coil | Coil | 213 | 233 | - | - |
Gene Ontology
Biological Process:
Molecular Function:
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT5G01830.1 | ARM repeat superfamily protein. | 0 |
| RefSeq | XP_017220234.1 | PREDICTED: U-box domain-containing protein 16 [Daucus carota subsp. sativus] | 0 |
| Q9LZW3 | U-box domain-containing protein 16 OS=Arabidopsis thaliana OX=3702 GN=PUB16 PE=2 SV=1 | 0 | |
| TrEMBL | A0A175YJY2 | RING-type E3 ubiquitin transferase OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_028911 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 4.988069 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 6.768497 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 7.751126 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 10.180228 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 10.087382 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 8.378599 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 9.498937 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 21.931904 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 2.099245 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 2.032597 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 2.093079 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 3.709258 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 3.789025 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 2.349798 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 10.475671 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 6.963699 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 2.120129 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 5.409296 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 3.503339 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 7.540927 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 6.861719 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 1.988381 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 3.497214 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 2.408675 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 2.667063 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 2.476115 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 2.101116 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 2.394073 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 1.559551 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 0.194042 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 0.22091 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 0.202478 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 4.562347 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 4.444074 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 9.723565 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 3.480503 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 1.441273 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 1.686417 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 1.131257 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 1.816255 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 1.756761 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 30.420195 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 29.884953 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 24.636271 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 20.822556 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 14.251662 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 15.411571 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 3.755585 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 4.702439 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 4.27259 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 2 | jg14712, jg3183 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_20402 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah031460 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_7g157400 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg2216, Sbi_jg34303 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg2561 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00005939 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl71050, Sgl74641 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000008787, gene:ENSEOMG00000038860 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.7AG0022520, CQ.Regalona.r1.7BG0025080 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30268720 |
| Apiaceae | Apium graveolens | 2 | Ag1G00562, Ag8G00030 |
| Arecaceae | Cocos nucifera | 2 | COCNU_04G004360, scaffold046440G000010 |
| Arecaceae | Phoenix dactylifera | 1 | gene-LOC103713429 |
| Asteraceae | Flaveria trinervia | 1 | Ftri11G19396 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT5G01830.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10022583m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp3g29940.v2.2 |
| Brassicaceae | Brassica nigra | 1 | BniB03g064190.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq08G0904 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl08G0921 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno04g14890 |
| Hydrocharitaceae | Thalassia testudinum | 2 | gene.Thate01g31520, gene.Thate04g08790 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 1 | nbisL1-mrna-4882 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG01.895 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00006961 |
| Plumbaginaceae | Limonium bicolor | 3 | Lb4G25317, Lb4G25586, Lb4G25587 |
| Poaceae | Echinochloa crus-galli | 6 | AH02.3711, AH05.2038, BH02.3246, BH05.2175, CH02.3998 ... |
| Poaceae | Eleusine coracana subsp. coracana | 4 | gene-QOZ80_1AG0038220, gene-QOZ80_1BG0088210 ... |
| Poaceae | Hordeum vulgare | 2 | HORVU.MOREX.r3.1HG0071210.1.CDS1 ... |
| Poaceae | Lolium multiflorum | 2 | gene-QYE76_014182, gene-QYE76_055650 |
| Poaceae | Oryza coarctata | 4 | Oco01G023640, Oco02G024400, Oco09G012180, Oco10G012270 |
| Poaceae | Oryza sativa | 3 | LOC_Os01g60860.1, LOC_Os05g39930.1, LOC_Os10g08790.1 |
| Poaceae | Paspalum vaginatum | 2 | gene-BS78_03G320100, gene-BS78_09G177800 |
| Poaceae | Puccinellia tenuiflora | 2 | Pt_Chr0601828, Pt_Chr0702135 |
| Poaceae | Sporobolus alterniflorus | 7 | Chr01G018460, Chr02G006040, Chr03G018980, Chr05G027320 ... |
| Poaceae | Thinopyrum elongatum | 3 | Tel1E01G485800, Tel3E01G548300, Tel3E01G552600 |
| Poaceae | Triticum dicoccoides | 4 | gene_TRIDC1AG044530, gene_TRIDC1BG050410 ... |
| Poaceae | Triticum aestivum | 6 | TraesCS1A02G300000.1.cds1, TraesCS1B02G310100.1.cds1 ... |
| Poaceae | Zea mays | 3 | Zm00001eb149420_P001, Zm00001eb290550_P001 ... |
| Poaceae | Zoysia japonica | 4 | nbis-gene-11553, nbis-gene-14239, nbis-gene-24229 ... |
| Poaceae | Zoysia macrostachya | 4 | Zma_g11434, Zma_g27008, Zma_g28438, Zma_g8907 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG07.899, evm.TU.LG15.806 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc01g33570 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_1_RagTag.1903 |
| Rhizophoraceae | Carallia pectinifolia | 1 | nbisL1-mrna-5673 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-9507 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-3626 |
| Rhizophoraceae | Kandelia candel | 1 | add.evm.TU.utg000016l.315 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00016965 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-18684 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-13838 |
| Salicaceae | Populus euphratica | 3 | populus_peu11502, populus_peu25285, populus_peu25286 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132630972 |
| Solanaceae | Solanum chilense | 1 | SOLCI005719600 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107029384 |
| Tamaricaceae | Reaumuria soongarica | 1 | gene_6630 |
| Tamaricaceae | Tamarix chinensis | 1 | TC07G1019 |
| Zosteraceae | Zostera marina | 4 | Zosma01g42180.v3.1, Zosma02g22090.v3.1, Zosma03g12900.v3.1 ... |