Basic Information
Locus ID:
Ag10G00645
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
Vacuolar protein sorting-associated protein 41 homolog
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr10 | 123343034 | 123354826 | + | Ag10G00645 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 5.77 | 106,141.61 Da | 44.00 | 89.40 | -0.31 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| Pfam | PF00637 | Region in Clathrin and VPS | 592 | 729 | 6.7E-20 | IPR000547 |
| SUPERFAMILY | SSF50978 | WD40 repeat-like | 36 | 229 | 2.49E-16 | IPR036322 |
| SUPERFAMILY | SSF57850 | RING/U-box | 846 | 880 | 1.65E-5 | - |
| Gene3D | G3DSA:2.130.10.10 | - | 34 | 320 | 8.0E-17 | IPR015943 |
| Gene3D | G3DSA:1.25.40.10 | Tetratricopeptide repeat domain | 520 | 801 | 1.2E-13 | IPR011990 |
| SMART | SM00299 | CLH_2 | 588 | 733 | 4.5E-26 | IPR000547 |
| SMART | SM00320 | WD40_4 | 63 | 102 | 2.1E-5 | IPR001680 |
| PIRSF | PIRSF028921 | Vps41 | 1 | 888 | 0.0 | IPR016902 |
| ProSiteProfiles | PS50236 | Clathrin heavy-chain (CHCR) repeat profile. | 588 | 733 | 36.574242 | IPR000547 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 21 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 16 | - | - |
Gene Ontology
Biological Process:
Molecular Function:
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT1G08190.1 | vacuolar protein sorting 41. Might be involved in protein sorting to the vacuole. | 0 |
| RefSeq | XP_017248622.1 | PREDICTED: vacuolar protein sorting-associated protein 41 homolog [Daucus carota subsp. sativus] | 0 |
| P93231 | Vacuolar protein sorting-associated protein 41 homolog OS=Solanum lycopersicum OX=4081 GN=VPS41 PE=2 SV=1 | 0 | |
| TrEMBL | A0A162A372 | Vacuolar protein sorting-associated protein 41 homolog OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_018754 PE=3 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 3.461651 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 2.286595 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 2.79196 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 2.429965 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 3.610807 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 3.174088 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 2.245851 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 1.925943 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 2.980824 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 3.460305 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 3.517168 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 3.884779 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 3.539102 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 3.108618 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 36.041363 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 36.598846 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 40.295818 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 44.75729 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 24.784666 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 31.660427 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 32.686375 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 15.897307 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 20.381714 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 19.794462 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 16.616472 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 35.331013 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 40.16008 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 26.669094 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 38.205704 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 4.712123 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 1.919042 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 1.327913 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 8.14414 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 6.000135 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 8.845193 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 7.787466 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 3.492764 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 5.465408 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 0.801958 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 0.797694 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 1.006327 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 12.321645 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 12.256072 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 10.6145 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 11.074363 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 11.751807 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 19.388329 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 12.77005 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 16.464146 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 15.175175 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 1 | jg16502 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_21201 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah011702 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_9g208980 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg11984, Sbi_jg46913 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg21202 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00009543 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl80393, Sgl82854 |
| Amaranthaceae | Chenopodium album | 5 | gene:ENSEOMG00000013312, gene:ENSEOMG00000017795 ... |
| Amaranthaceae | Chenopodium quinoa | 4 | CQ.Regalona.r1.6AG0009140, CQ.Regalona.r1.9AG0007540 ... |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30057500 |
| Apiaceae | Apium graveolens | 3 | Ag10G00645, Ag11G04350, Ag2G01017 |
| Arecaceae | Cocos nucifera | 2 | COCNU_09G006340, scaffold008549G000140 |
| Arecaceae | Phoenix dactylifera | 1 | gene-LOC103723745 |
| Asparagaceae | Asparagus officinalis | 4 | AsparagusV1_03.3199.V1.1, AsparagusV1_06.1781.V1.1 ... |
| Asteraceae | Flaveria trinervia | 1 | Ftri16G17663 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT1G08190.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10006697m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp1g06840.v2.2 |
| Brassicaceae | Brassica nigra | 1 | BniB04g031420.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq05G1693 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl05G1691 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno09g00270 |
| Dunaliellaceae | Dunaliella salina | 2 | Dusal.0239s00012.v1.0, Dusal.0239s00013.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate05g02540 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 1 | nbisL1-mrna-2346 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG09.802 |
| Plantaginaceae | Plantago ovata | 2 | Pov_00012528, Pov_00026480 |
| Plumbaginaceae | Limonium bicolor | 5 | Lb0G37755, Lb3G19531, Lb3G19532, Lb3G19536, Lb3G20104 |
| Poaceae | Echinochloa crus-galli | 3 | AH09.2687, BH09.2922, CH09.3133 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_4AG0299690, gene-QOZ80_4BG0330360 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.2HG0210930.1 |
| Poaceae | Lolium multiflorum | 1 | gene-QYE76_047453 |
| Poaceae | Oryza coarctata | 3 | Oco08G001770, Oco23G004850, Oco24G004370 |
| Poaceae | Oryza sativa | 1 | LOC_Os04g11880.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_06G280800 |
| Poaceae | Puccinellia tenuiflora | 4 | Pt_Chr0300186, Pt_Chr0300189, Pt_Chr0300196, Pt_Chr0303114 |
| Poaceae | Sporobolus alterniflorus | 3 | Chr23G001090, Chr25G000840, Chr26G018200 |
| Poaceae | Thinopyrum elongatum | 1 | Tel2E01G941100 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC2AG076960, gene_TRIDC2BG084570 |
| Poaceae | Triticum aestivum | 3 | TraesCS2A02G552000.1, TraesCS2B02G583300.1 ... |
| Poaceae | Zea mays | 3 | Zm00001eb043500_P001, Zm00001eb066510_P002 ... |
| Poaceae | Zoysia japonica | 1 | nbis-gene-6178 |
| Poaceae | Zoysia macrostachya | 1 | Zma_g22210 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG07.1566, evm.TU.LG15.1686 |
| Posidoniaceae | Posidonia oceanica | 2 | gene.Posoc08g06150, gene.Posoc08g06170 |
| Rhizophoraceae | Bruguiera sexangula | 3 | evm.TU.46317.6, evm.TU.Scaffold_14_RagTag.839 ... |
| Rhizophoraceae | Carallia pectinifolia | 1 | nbisL1-mrna-16597 |
| Rhizophoraceae | Ceriops tagal | 2 | nbisL1-mrna-5500, nbisL1-mrna-8042 |
| Rhizophoraceae | Ceriops zippeliana | 2 | nbisL1-mrna-17165, nbisL1-mrna-19139 |
| Rhizophoraceae | Kandelia candel | 2 | evm.TU.utg000022l.120, evm.TU.utg000025l.55 |
| Rhizophoraceae | Kandelia obovata | 2 | Maker00012204, Maker00016232 |
| Rhizophoraceae | Rhizophora apiculata | 2 | nbisL1-mrna-123, nbisL1-mrna-15901 |
| Rhizophoraceae | Rhizophora mangle | 2 | nbisL1-mrna-10375, nbisL1-mrna-23791 |
| Salicaceae | Populus euphratica | 3 | populus_peu02499, populus_peu35355, populus_peu35397 |
| Solanaceae | Lycium barbarum | 2 | gene-LOC132600495, gene-LOC132604542 |
| Solanaceae | Solanum chilense | 2 | SOLCI003117800, SOLCI006548800 |
| Solanaceae | Solanum pennellii | 2 | gene-LOC107004792, gene-LOC107023568 |
| Tamaricaceae | Reaumuria soongarica | 1 | gene_8588 |
| Tamaricaceae | Tamarix chinensis | 1 | TC03G1915 |
| Zosteraceae | Zostera marina | 6 | Zosma06g13390.v3.1, Zosma15g00030.v3.1, Zosma660g00010.v3.1 ... |