Basic Information
Locus ID:
Ag8G01268
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
Cop9 signalosome complex subunit
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr8 | 157204155 | 157209777 | + | Ag8G01268 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 4.99 | 40,146.63 Da | 48.02 | 79.50 | -0.41 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd08069 | MPN_RPN11_CSN5 | 50 | 322 | 5.19373E-155 | - |
| Pfam | PF18323 | Cop9 signalosome subunit 5 C-terminal domain | 257 | 337 | 2.5E-26 | IPR040961 |
| Pfam | PF01398 | JAB1/Mov34/MPN/PAD-1 ubiquitin protease | 58 | 169 | 4.5E-34 | IPR000555 |
| SUPERFAMILY | SSF102712 | JAB1/MPN domain | 60 | 197 | 2.62E-13 | - |
| Gene3D | G3DSA:3.40.140.10 | Cytidine Deaminase, domain 2 | 4 | 263 | 3.4E-115 | - |
| SMART | SM00232 | pad1_6 | 60 | 197 | 5.1E-47 | IPR000555 |
| ProSiteProfiles | PS50249 | MPN domain profile. | 61 | 198 | 33.582863 | IPR037518 |
Gene Ontology
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT1G22920.1 | COP9 signalosome 5A. AJH1 encodes a protein similar to JAB1, a specific mammalian coactivator of AP-1 transcription. Encodes a subunit of the COP9 complex that is involved in protein deneddylation. Plants with mutations in CSN5A and CSN5B have a de-etiolated phenotype. | 0 |
| RefSeq | XP_017220167.1 | PREDICTED: COP9 signalosome complex subunit 5b-like [Daucus carota subsp. sativus] | 0 |
| Q8LAZ7 | COP9 signalosome complex subunit 5a OS=Arabidopsis thaliana OX=3702 GN=CSN5A PE=1 SV=2 | 0 | |
| TrEMBL | A0A175YMU6 | MPN domain-containing protein OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_027524 PE=3 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 43.075085 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 30.096252 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 31.476894 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 34.59827 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 36.252468 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 30.183037 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 25.82947 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 17.885164 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 37.225029 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 38.833019 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 40.800648 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 38.481407 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 39.807041 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 41.748905 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 33.267242 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 35.514633 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 34.149929 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 33.072285 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 26.686327 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 34.519951 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 28.660923 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 42.69157 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 44.290016 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 47.530064 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 42.998158 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 32.039043 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 33.734875 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 30.336868 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 32.122654 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 32.202084 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 36.20771 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 31.41176 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 36.913795 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 39.281624 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 33.688297 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 32.206001 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 25.60437 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 28.8169 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 28.377686 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 16.908939 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 17.301842 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 28.903946 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 49.632835 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 62.968235 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 52.157021 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 41.325092 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 39.967762 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 49.158768 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 46.779613 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 45.654545 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 1 | jg7782 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_13106 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah034416 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_2g033490 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg20473, Sbi_jg23330 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg17103 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00009100 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl63561, Sgl68054 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000017221, gene:ENSEOMG00000020679 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.2AG0013420, CQ.Regalona.r1.2BG0015440 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30251900 |
| Apiaceae | Apium graveolens | 1 | Ag8G01268 |
| Arecaceae | Cocos nucifera | 2 | COCNU_01G003770, contig69480108G000010 |
| Arecaceae | Phoenix dactylifera | 2 | gene-LOC103718036, gene-LOC103721529 |
| Asparagaceae | Asparagus officinalis | 1 | AsparagusV1_03.1428.V1.1 |
| Asteraceae | Flaveria trinervia | 1 | Ftri13G33348 |
| Brassicaceae | Arabidopsis thaliana | 2 | AT1G22920.1, AT1G71230.1 |
| Brassicaceae | Eutrema salsugineum | 2 | Thhalv10008042m.g.v1.0, Thhalv10018788m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 2 | Sp1g20380.v2.2, Sp5g26420.v2.2 |
| Brassicaceae | Brassica nigra | 2 | BniB03g030530.2N, BniB04g038190.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq04G2188 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl04G2382 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno06g06670 |
| Dunaliellaceae | Dunaliella salina | 1 | Dusal.0004s00011.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate03g22590 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG07.1603 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00028703 |
| Plumbaginaceae | Limonium bicolor | 1 | Lb1G05034 |
| Poaceae | Echinochloa crus-galli | 3 | AH09.2545, BH09.2778, CH09.2976 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_4AG0301140, gene-QOZ80_4BG0331910 |
| Poaceae | Hordeum vulgare | 5 | HORVU.MOREX.r3.2HG0203060.1, HORVU.MOREX.r3.3HG0238330.1 ... |
| Poaceae | Lolium multiflorum | 1 | gene-QYE76_046854 |
| Poaceae | Oryza coarctata | 2 | Oco07G017840, Oco08G017230 |
| Poaceae | Oryza sativa | 1 | LOC_Os04g56070.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_06G264100 |
| Poaceae | Sporobolus alterniflorus | 4 | Chr23G002160, Chr25G001700, Chr26G017210, Chr30G001710 |
| Poaceae | Thinopyrum elongatum | 1 | Tel2E01G856000 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC2AG071050, gene_TRIDC2BG076780 |
| Poaceae | Triticum aestivum | 2 | TraesCS2A02G504600.1, TraesCS2D02G505300.1 |
| Poaceae | Zea mays | 1 | Zm00001eb068020_P001 |
| Poaceae | Zoysia japonica | 1 | nbis-gene-23062 |
| Poaceae | Zoysia macrostachya | 1 | Zma_g20584 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG07.831, evm.TU.LG15.101 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc03g14700 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_10_RagTag.977 |
| Rhizophoraceae | Carallia pectinifolia | 1 | nbisL1-mrna-13512 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-10845 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-9215 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000004l.251 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00004104 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-3690 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-7726 |
| Salicaceae | Populus euphratica | 2 | populus_peu04590, populus_peu13073 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132603052 |
| Solanaceae | Solanum chilense | 2 | SOLCI000120000, SOLCI006509000 |
| Solanaceae | Solanum pennellii | 2 | gene-LOC107004781, gene-LOC107023832 |
| Tamaricaceae | Reaumuria soongarica | 1 | gene_13360 |
| Tamaricaceae | Tamarix chinensis | 1 | TC11G1517 |
| Zosteraceae | Zostera marina | 1 | Zosma03g19520.v3.1 |