Basic Information
Locus ID:
Ag4G00059
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
ubiquitin receptor
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr4 | 2475815 | 2479838 | + | Ag4G00059 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 4.36 | 37,980.11 Da | 56.97 | 83.94 | -0.33 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd01805 | Ubl_Rad23 | 1 | 74 | 1.69607E-26 | - |
| Pfam | PF09280 | XPC-binding domain | 225 | 280 | 3.7E-22 | IPR015360 |
| Pfam | PF00627 | UBA/TS-N domain | 133 | 170 | 2.7E-12 | IPR015940 |
| Pfam | PF00627 | UBA/TS-N domain | 306 | 341 | 8.4E-11 | IPR015940 |
| Pfam | PF00240 | Ubiquitin family | 3 | 76 | 3.8E-17 | IPR000626 |
| SUPERFAMILY | SSF54236 | Ubiquitin-like | 1 | 87 | 8.75E-21 | IPR029071 |
| SUPERFAMILY | SSF46934 | UBA-like | 128 | 179 | 2.44E-11 | IPR009060 |
| SUPERFAMILY | SSF46934 | UBA-like | 288 | 347 | 4.47E-14 | IPR009060 |
| SUPERFAMILY | SSF101238 | XPC-binding domain | 221 | 287 | 1.31E-21 | IPR036353 |
| Gene3D | G3DSA:1.10.8.10 | - | 298 | 345 | 1.0E-22 | - |
| Gene3D | G3DSA:3.10.20.90 | - | 1 | 80 | 8.6E-24 | - |
| Gene3D | G3DSA:1.10.10.540 | - | 215 | 281 | 1.8E-26 | IPR036353 |
| Gene3D | G3DSA:1.10.8.10 | - | 126 | 175 | 6.9E-18 | - |
| SMART | SM00213 | ubq_7 | 1 | 75 | 8.1E-20 | IPR000626 |
| SMART | SM00727 | CBM | 223 | 266 | 2.3E-5 | IPR006636 |
| SMART | SM00165 | uba_6 | 306 | 343 | 7.9E-8 | IPR015940 |
| SMART | SM00165 | uba_6 | 132 | 172 | 0.051 | IPR015940 |
| TIGRFAM | TIGR00601 | rad23: UV excision repair protein Rad23 | 1 | 348 | 3.0E-110 | IPR004806 |
| ProSiteProfiles | PS50030 | Ubiquitin-associated domain (UBA) profile. | 304 | 344 | 15.101187 | IPR015940 |
| ProSiteProfiles | PS50030 | Ubiquitin-associated domain (UBA) profile. | 130 | 173 | 11.438427 | IPR015940 |
| ProSiteProfiles | PS50053 | Ubiquitin domain profile. | 1 | 79 | 19.324877 | IPR000626 |
| PRINTS | PR01839 | DNA repair protein Rad23 signature | 317 | 331 | 6.6E-32 | IPR004806 |
| PRINTS | PR01839 | DNA repair protein Rad23 signature | 251 | 273 | 6.6E-32 | IPR004806 |
| PRINTS | PR01839 | DNA repair protein Rad23 signature | 300 | 316 | 6.6E-32 | IPR004806 |
| PRINTS | PR01839 | DNA repair protein Rad23 signature | 332 | 347 | 6.6E-32 | IPR004806 |
Gene Ontology
Biological Process:
Molecular Function:
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT1G79650.1 | Rad23 UV excision repair protein family. Encodes a member of the RADIATION SENSITIVE23 (RAD23) family: AT1G16190(RAD23A), AT1G79650(RAD23B), AT3G02540(RAD23C), AT5G38470(RAD23D). RAD23 proteins play an essential role in the cell cycle, morphology, and fertility of plants through their delivery of UPS (ubiquitin/26S proteasome system) substrates to the 26S proteasome. | 0 |
| RefSeq | XP_017251363.1 | PREDICTED: ubiquitin receptor RAD23b-like isoform X1 [Daucus carota subsp. sativus] | 0 |
| Q84L33 | Ubiquitin receptor RAD23b OS=Arabidopsis thaliana OX=3702 GN=RAD23B PE=1 SV=3 | 0 | |
| TrEMBL | A0A5J5BIC3 | Ubiquitin receptor RAD23 OS=Nyssa sinensis OX=561372 GN=F0562_023172 PE=3 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 13.667805 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 9.384056 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 9.103447 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 8.781833 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 7.085245 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 5.371302 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 5.659347 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 3.584428 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 32.875484 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 34.424965 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 33.991791 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 34.821136 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 31.565809 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 32.806396 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 5.759318 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 8.7163 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 9.890368 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 7.900472 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 8.095141 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 6.437929 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 7.664822 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 14.747883 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 15.305259 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 20.051359 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 16.680487 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 10.538775 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 10.495686 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 8.131918 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 9.451581 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 1.629908 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 3.770373 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 3.760318 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 7.265317 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 17.00716 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 6.669838 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 5.099644 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 2.045599 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 3.007966 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 16.575472 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 6.657825 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 3.784396 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 6.413604 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 3.610333 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 4.078603 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 4.006334 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 11.915381 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 3.679801 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 27.742817 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 24.62508 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 28.638128 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology