Basic Information
Locus ID:
Ag4G02032
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
vacuolar protein sorting-associated protein 18 homolog
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr4 | 275027667 | 275042712 | - | Ag4G02032 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 5.45 | 105,314.06 Da | 41.33 | 91.89 | -0.23 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd16462 | RING-H2_Pep3p_like | 781 | 899 | 9.71764E-14 | - |
| Pfam | PF05131 | Pep3/Vps18/deep orange family | 236 | 373 | 4.7E-35 | IPR007810 |
| Pfam | PF00637 | Region in Clathrin and VPS | 545 | 692 | 1.6E-11 | IPR000547 |
| SUPERFAMILY | SSF57850 | RING/U-box | 767 | 829 | 1.77E-7 | - |
| ProSiteProfiles | PS50236 | Clathrin heavy-chain (CHCR) repeat profile. | 535 | 696 | 20.489676 | IPR000547 |
| Coils | Coil | Coil | 732 | 766 | - | - |
Gene Ontology
Biological Process:
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT1G12470.1 | zinc ion binding. | 0 |
| RefSeq | XP_017241734.1 | PREDICTED: vacuolar protein sorting-associated protein 18 homolog [Daucus carota subsp. sativus] | 0 |
| F4IDS7 | Vacuolar sorting protein 18 OS=Arabidopsis thaliana OX=3702 GN=VPS18 PE=1 SV=1 | 0 | |
| TrEMBL | A0A166AAZ1 | Pep3_Vps18 domain-containing protein OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_009724 PE=3 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 38.711529 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 26.182978 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 27.051538 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 27.826637 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 27.372604 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 27.044073 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 26.98008 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 26.207539 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 39.614452 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 38.101799 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 43.737316 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 41.596062 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 35.655357 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 31.896528 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 25.904766 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 30.191954 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 26.854345 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 36.935268 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 29.858919 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 29.49437 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 31.277704 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 23.434811 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 28.955599 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 26.84486 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 28.668856 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 42.62468 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 33.920776 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 31.520992 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 40.244576 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 3.836685 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 6.169297 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 3.946926 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 8.463337 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 6.855042 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 8.10076 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 5.28462 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 3.175306 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 3.500899 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 20.393301 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 15.691732 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 9.174278 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 12.732068 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 25.029329 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 42.337261 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 40.454739 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 14.41136 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 38.76775 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 24.267254 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 20.023623 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 21.944349 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 1 | jg25893 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_21006 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah037734 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_5g111440 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg12767, Sbi_jg53130 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg8751 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00013710 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl12875, Sgl18117 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000005811, gene:ENSEOMG00000022331 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.2BG0007090, CQ.Regalona.r1.5AG0013740 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30019280 |
| Apiaceae | Apium graveolens | 1 | Ag4G02032 |
| Arecaceae | Cocos nucifera | 1 | COCNU_12G004080 |
| Arecaceae | Phoenix dactylifera | 1 | gene-LOC103709893 |
| Asparagaceae | Asparagus officinalis | 1 | AsparagusV1_08.2762.V1.1 |
| Asteraceae | Flaveria trinervia | 1 | Ftri13G01558 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT1G12470.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10006686m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp1g11070.v2.2 |
| Brassicaceae | Brassica nigra | 2 | BniB03g005160.2N, BniB04g027270.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq02G2540 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl02G2627 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno13g00240 |
| Dunaliellaceae | Dunaliella salina | 1 | Dusal.0311s00013.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate05g29050 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG04.1944 |
| Plantaginaceae | Plantago ovata | 2 | Pov_00022146, Pov_00025622 |
| Plumbaginaceae | Limonium bicolor | 3 | Lb2G09129, Lb5G28516, Lb5G28571 |
| Poaceae | Echinochloa crus-galli | 2 | BH08.496, CH08.554 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_8AG0619260, gene-QOZ80_8BG0646820 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.5HG0509400.1 |
| Poaceae | Lolium multiflorum | 1 | gene-QYE76_032882 |
| Poaceae | Oryza coarctata | 1 | Oco15G003290 |
| Poaceae | Oryza sativa | 1 | LOC_Os08g08060.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_07G063500 |
| Poaceae | Puccinellia tenuiflora | 1 | Pt_Chr0402421 |
| Poaceae | Sporobolus alterniflorus | 4 | Chr16G002090, Chr17G001920, Chr20G011970, Chr29G010690 |
| Poaceae | Thinopyrum elongatum | 1 | Tel5E01G604700 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC5AG055640, gene_TRIDC5BG059620 |
| Poaceae | Triticum aestivum | 3 | TraesCS5A02G380600.2, TraesCS5B02G384200.1 ... |
| Poaceae | Zea mays | 1 | Zm00001eb412950_P003 |
| Poaceae | Zoysia japonica | 1 | nbis-gene-38972 |
| Poaceae | Zoysia macrostachya | 1 | Zma_g22559 |
| Portulacaceae | Portulaca oleracea | 1 | evm.TU.LG03.87 |
| Posidoniaceae | Posidonia oceanica | 2 | gene.Posoc10g00690, gene.Posoc10g00880 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_9_RagTag.1294 |
| Rhizophoraceae | Carallia pectinifolia | 1 | nbisL1-mrna-20875 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-8730 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-21278 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000003l.797 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00009368 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-1255 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-4783 |
| Salicaceae | Populus euphratica | 1 | populus_peu16923 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132605934 |
| Solanaceae | Solanum chilense | 1 | SOLCI001389400 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107023179 |
| Tamaricaceae | Reaumuria soongarica | 1 | gene_13790 |
| Tamaricaceae | Tamarix chinensis | 1 | TC01G2374 |
| Zosteraceae | Zostera marina | 1 | Zosma01g29320.v3.1 |