Basic Information
Locus ID:
Ag6G01454
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
The coatomer is a cytosolic protein complex that binds to dilysine motifs and reversibly associates with Golgi non- clathrin-coated vesicles, which further mediate biosynthetic protein transport from the ER, via the Golgi up to the trans Golgi network. Coatomer complex is required for budding from Golgi membranes, and is essential for the retrograde Golgi-to-ER transport of dilysine-tagged proteins
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr6 | 73175267 | 73187163 | + | Ag6G01454 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 4.96 | 103,325.93 Da | 36.94 | 90.11 | -0.26 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd00200 | WD40 | 17 | 297 | 2.88587E-67 | - |
| Pfam | PF00400 | WD domain, G-beta repeat | 177 | 215 | 4.8E-6 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 91 | 127 | 2.4E-5 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 133 | 171 | 1.3E-4 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 220 | 256 | 2.1E-8 | IPR001680 |
| Pfam | PF04053 | Coatomer WD associated region | 319 | 763 | 9.0E-163 | IPR006692 |
| SUPERFAMILY | SSF50978 | WD40 repeat-like | 3 | 297 | 3.66E-78 | IPR036322 |
| SUPERFAMILY | SSF51004 | C-terminal (heme d1) domain of cytochrome cd1-nitrite reductase | 199 | 482 | 2.28E-19 | IPR011048 |
| Gene3D | G3DSA:2.130.10.10 | - | 11 | 300 | 2.6E-112 | IPR015943 |
| Gene3D | G3DSA:1.25.40.470 | - | 590 | 798 | 1.5E-81 | - |
| SMART | SM00320 | WD40_4 | 131 | 171 | 2.6E-9 | IPR001680 |
| SMART | SM00320 | WD40_4 | 174 | 215 | 5.8E-7 | IPR001680 |
| SMART | SM00320 | WD40_4 | 218 | 257 | 1.7E-11 | IPR001680 |
| SMART | SM00320 | WD40_4 | 88 | 127 | 1.1E-7 | IPR001680 |
| SMART | SM00320 | WD40_4 | 46 | 85 | 0.19 | IPR001680 |
| SMART | SM00320 | WD40_4 | 4 | 43 | 0.49 | IPR001680 |
| PIRSF | PIRSF005567 | Beta'-COP | 2 | 886 | 0.0 | IPR016453 |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 138 | 172 | 11.207411 | - |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 225 | 256 | 12.551949 | - |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 181 | 224 | 11.912015 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 95 | 127 | 12.413288 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 138 | 180 | 13.649761 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 225 | 266 | 15.654854 | IPR001680 |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 95 | 127 | 10.337415 | - |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 181 | 218 | 8.887423 | - |
| PRINTS | PR00320 | G protein beta WD-40 repeat signature | 244 | 258 | 1.5E-6 | IPR020472 |
| PRINTS | PR00320 | G protein beta WD-40 repeat signature | 202 | 216 | 1.5E-6 | IPR020472 |
| PRINTS | PR00320 | G protein beta WD-40 repeat signature | 158 | 172 | 1.5E-6 | IPR020472 |
Gene Ontology
Biological Process:
Molecular Function:
Cellular Component:
KEGG Pathway
KO Term:
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT1G79990.1 | structural molecules. | 0 |
| RefSeq | XP_017234659.1 | PREDICTED: coatomer subunit beta'-2-like [Daucus carota subsp. sativus] | 0 |
| Q9CAA0 | Coatomer subunit beta'-1 OS=Arabidopsis thaliana OX=3702 GN=At1g79990 PE=2 SV=2 | 0 | |
| TrEMBL | A0A166EL71 | Coatomer subunit beta' OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_007555 PE=3 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 31.736708 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 18.106695 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 15.984516 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 20.534008 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 19.33576 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 9.878037 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 11.400284 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 5.920402 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 56.7029 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 55.68116 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 62.631859 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 59.818184 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 54.872425 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 50.009201 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 58.263763 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 73.524551 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 58.270393 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 45.454353 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 39.572235 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 44.382862 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 35.581905 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 39.626347 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 40.769409 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 37.873192 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 41.055088 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 53.339214 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 44.176151 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 34.168564 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 60.149506 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 2.312041 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 3.50861 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 3.316801 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 4.411329 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 9.756617 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 6.017041 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 2.528887 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 0.603197 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 1.339559 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 31.018133 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 11.671226 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 4.997674 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 7.443187 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 8.053269 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 14.77839 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 13.171233 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 9.548208 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 17.638174 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 32.382774 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 33.865879 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 29.315231 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology