Basic Information
Locus ID:
Ag3G00070
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Short Name:
UBP16
Description:
Ubiquitin carboxyl-terminal hydrolase
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr3 | 1762316 | 1770081 | + | Ag3G00070 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 8.31 | 119,630.44 Da | 50.94 | 65.92 | -0.58 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| Pfam | PF01753 | MYND finger | 80 | 117 | 4.3E-9 | IPR002893 |
| Pfam | PF00443 | Ubiquitin carboxyl-terminal hydrolase | 589 | 891 | 1.0E-42 | IPR001394 |
| SUPERFAMILY | SSF54001 | Cysteine proteinases | 585 | 897 | 5.3E-83 | IPR038765 |
| SUPERFAMILY | SSF144232 | HIT/MYND zinc finger-like | 75 | 120 | 4.88E-12 | - |
| Gene3D | G3DSA:6.10.140.2220 | - | 73 | 119 | 6.4E-12 | - |
| Gene3D | G3DSA:3.90.70.10 | Cysteine proteinases | 582 | 904 | 6.3E-90 | - |
| ProSiteProfiles | PS50865 | Zinc finger MYND-type profile. | 80 | 117 | 11.550815 | IPR002893 |
| ProSiteProfiles | PS50235 | Ubiquitin specific protease (USP) domain profile. | 589 | 894 | 49.845245 | IPR028889 |
| ProSitePatterns | PS00972 | Ubiquitin specific protease (USP) domain signature 1. | 590 | 605 | - | IPR018200 |
| ProSitePatterns | PS01360 | Zinc finger MYND-type signature. | 80 | 117 | - | IPR002893 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 1015 | 1041 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 1015 | 1039 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 244 | 271 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 192 | 217 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 453 | 509 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 904 | 925 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 1065 | 1086 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 250 | 265 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 959 | 986 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 291 | 341 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 474 | 489 | - | - |
Gene Ontology
Biological Process:
Molecular Function:
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT4G24560.1 | ubiquitin-specific protease 16. Encodes a ubiquitin-specific protease. There is no evidence for a phenotype in ubp16-1 mutants, however, double mutant analysis with ubp15 mutants reveals a role for UBP16 in plant development and cell proliferation. | 0 |
| RefSeq | XP_017247472.1 | PREDICTED: ubiquitin carboxyl-terminal hydrolase 16 isoform X1 [Daucus carota subsp. sativus] | 0 |
| Q9SB51 | Ubiquitin carboxyl-terminal hydrolase 16 OS=Arabidopsis thaliana OX=3702 GN=UBP16 PE=1 SV=1 | 0 | |
| TrEMBL | A0A165Z9L5 | MYND-type domain-containing protein OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_012860 PE=3 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 19.739264 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 20.492483 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 19.694115 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 22.680655 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 20.97229 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 26.800016 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 21.117174 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 28.139038 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 22.697924 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 20.750561 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 20.427191 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 19.086994 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 22.972073 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 19.510324 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 8.701715 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 8.929514 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 9.659006 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 13.19 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 7.615071 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 20.823135 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 15.575352 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 15.055749 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 13.796106 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 16.632626 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 18.521488 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 14.856463 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 9.774826 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 8.588026 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 12.28498 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 2.509324 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 4.223725 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 3.256554 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 8.793657 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 9.375635 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 9.88395 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 6.706331 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 3.564738 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 3.3088 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 8.075774 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 7.314478 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 3.939543 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 31.420362 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 19.055138 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 15.83276 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 13.382245 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 16.236752 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 14.624431 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 16.307852 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 19.4513 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 16.723845 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology