Basic Information
Locus ID:
Ag8G02163
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Short Name:
UBP2
Description:
Ubiquitin carboxyl-terminal hydrolase
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr8 | 264738743 | 264745391 | - | Ag8G02163 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 5.16 | 118,008.80 Da | 49.08 | 74.19 | -0.51 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| Pfam | PF00443 | Ubiquitin carboxyl-terminal hydrolase | 236 | 1074 | 1.7E-48 | IPR001394 |
| Pfam | PF02148 | Zn-finger in ubiquitin-hydrolases and other protein | 78 | 169 | 2.5E-15 | IPR001607 |
| SUPERFAMILY | SSF57850 | RING/U-box | 54 | 169 | 1.29E-14 | - |
| SUPERFAMILY | SSF54001 | Cysteine proteinases | 236 | 1074 | 7.85E-85 | IPR038765 |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 49 | 188 | 1.5E-18 | IPR013083 |
| Gene3D | G3DSA:3.90.70.10 | Cysteine proteinases | 228 | 419 | 1.0E-45 | - |
| Gene3D | G3DSA:3.90.70.10 | Cysteine proteinases | 890 | 1076 | 7.3E-40 | - |
| SMART | SM00290 | Zf_UBP_1 | 101 | 159 | 4.5E-9 | IPR001607 |
| ProSiteProfiles | PS50235 | Ubiquitin specific protease (USP) domain profile. | 236 | 1077 | 43.250458 | IPR028889 |
| ProSiteProfiles | PS50271 | Zinc finger UBP-type profile. | 100 | 171 | 14.025686 | IPR001607 |
| ProSitePatterns | PS00972 | Ubiquitin specific protease (USP) domain signature 1. | 237 | 252 | - | IPR018200 |
| ProSitePatterns | PS00973 | Ubiquitin specific protease (USP) domain signature 2. | 1007 | 1024 | - | IPR018200 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 402 | 421 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 908 | 942 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 87 | 107 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 35 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 392 | 425 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 908 | 926 | - | - |
Gene Ontology
Biological Process:
Molecular Function:
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT1G04860.1 | ubiquitin-specific protease 2. Encodes a ubiquitin-specific protease. | 0 |
| RefSeq | XP_017222949.1 | PREDICTED: ubiquitin carboxyl-terminal hydrolase 2-like [Daucus carota subsp. sativus] | 0 |
| Q8W4N3 | Ubiquitin carboxyl-terminal hydrolase 2 OS=Arabidopsis thaliana OX=3702 GN=UBP2 PE=1 SV=2 | 0 | |
| TrEMBL | A0A175YR59 | ubiquitinyl hydrolase 1 OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_026615 PE=3 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 15.963183 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 12.382193 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 14.700711 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 15.951994 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 14.724146 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 15.569749 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 15.154884 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 15.27299 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 16.399723 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 17.263868 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 18.290775 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 15.667729 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 17.70993 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 13.868429 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 6.453202 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 9.379642 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 9.882178 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 12.709458 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 8.591229 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 12.317586 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 13.439868 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 10.041131 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 10.002316 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 10.102963 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 9.666018 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 13.060758 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 11.447609 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 12.724427 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 13.608842 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 5.615227 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 5.753765 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 4.982508 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 9.59833 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 7.157641 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 6.490941 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 6.711514 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 2.936824 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 4.584889 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 8.061123 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 7.485498 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 5.094213 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 10.443886 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 20.840956 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 28.791231 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 18.69696 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 9.352433 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 24.421455 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 10.020179 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 8.724809 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 11.294255 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 1 | jg12838 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_4817 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah022542 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_2g033400 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg59483, Sbi_jg63169 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg23724 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00020669 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl02854, Sgl07972 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000031312, gene:ENSEOMG00000046197 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.3AG0025590, CQ.Regalona.r1.3BG0026510 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30241350 |
| Apiaceae | Apium graveolens | 1 | Ag8G02163 |
| Arecaceae | Cocos nucifera | 2 | COCNU_02G008460, COCNU_15G004470 |
| Arecaceae | Phoenix dactylifera | 2 | gene-LOC103709381, gene-LOC103710842 |
| Asparagaceae | Asparagus officinalis | 1 | AsparagusV1_10.522.V1.1 |
| Asteraceae | Flaveria trinervia | 1 | Ftri12G28681 |
| Brassicaceae | Arabidopsis thaliana | 2 | AT1G04860.1, AT2G32780.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10006716m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 2 | Sp1g03710.v2.2, Sp4g15130.v2.2 |
| Brassicaceae | Brassica nigra | 4 | BniB02g001980.2N, BniB03g001100.2N, BniB06g021950.2N ... |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq07G0730 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl07G0777 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno08g01130 |
| Dunaliellaceae | Dunaliella salina | 1 | Dusal.0279s00010.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate04g21650 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 1 | nbisL1-mrna-5388 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG11.560 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00002334 |
| Plumbaginaceae | Limonium bicolor | 2 | Lb3G15805, Lb3G20307 |
| Poaceae | Echinochloa crus-galli | 3 | AH02.3912, BH02.3934, BH07.4243 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_6AG0540750, gene-QOZ80_6BG0493990 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.5HG0493830.1 |
| Poaceae | Lolium multiflorum | 1 | gene-QYE76_006440 |
| Poaceae | Oryza coarctata | 2 | Oco17G008770, Oco18G008850 |
| Poaceae | Oryza sativa | 1 | LOC_Os09g32740.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_02G232700 |
| Poaceae | Puccinellia tenuiflora | 2 | Pt_Chr0701464, Pt_Chr0701477 |
| Poaceae | Sporobolus alterniflorus | 5 | Chr0G001060, Chr10G015050, Chr11G007240, Chr14G016660 ... |
| Poaceae | Thinopyrum elongatum | 2 | Tel5E01G446800, Tel5E01G452100 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC5AG042490, gene_TRIDC5BG046410 |
| Poaceae | Triticum aestivum | 3 | TraesCS5A02G284200.1, TraesCS5B02G282900.2 ... |
| Poaceae | Zea mays | 1 | Zm00001eb102350_P001 |
| Poaceae | Zoysia japonica | 3 | nbis-gene-10374, nbis-gene-19414, nbis-gene-56605 |
| Poaceae | Zoysia macrostachya | 2 | Zma_g30595, Zma_g32843 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG07.43, evm.TU.LG25.663 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc05g04070 |
| Rhizophoraceae | Bruguiera sexangula | 2 | evm.TU.Scaffold_3_RagTag.1380, evm.TU.Scaffold_6_RagTag.989 |
| Rhizophoraceae | Carallia pectinifolia | 1 | nbisL1-mrna-1703 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-4074 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-2625 |
| Rhizophoraceae | Kandelia candel | 2 | evm.TU.utg000011l.628, evm.TU.utg000019l.408 |
| Rhizophoraceae | Kandelia obovata | 2 | Maker00001620, Maker00008320 |
| Rhizophoraceae | Rhizophora apiculata | 2 | nbisL1-mrna-12248, nbisL1-mrna-22877 |
| Rhizophoraceae | Rhizophora mangle | 2 | nbisL1-mrna-18122, nbisL1-mrna-4382 |
| Salicaceae | Populus euphratica | 4 | populus_peu01372, populus_peu01373, populus_peu24244 ... |
| Solanaceae | Lycium barbarum | 2 | gene-LOC132608834, gene-LOC132640255 |
| Solanaceae | Solanum chilense | 2 | SOLCI003739600, SOLCI004419400 |
| Solanaceae | Solanum pennellii | 2 | gene-LOC107018776, gene-LOC107031600 |
| Tamaricaceae | Reaumuria soongarica | 1 | gene_5364 |
| Tamaricaceae | Tamarix chinensis | 1 | TC05G0156 |
| Zosteraceae | Zostera marina | 1 | Zosma04g01530.v3.1 |