Basic Information
Locus ID:
Ag1G00944
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
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr1 | 149728274 | 149734148 | + | Ag1G00944 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 6.77 | 136,397.30 Da | 32.52 | 92.75 | -0.21 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd00200 | WD40 | 9 | 317 | 4.86886E-75 | - |
| Pfam | PF00400 | WD domain, G-beta repeat | 45 | 79 | 6.6E-5 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 198 | 231 | 2.4E-4 | IPR001680 |
| Pfam | PF04053 | Coatomer WD associated region | 342 | 768 | 4.2E-131 | IPR006692 |
| Pfam | PF00400 | WD domain, G-beta repeat | 126 | 163 | 5.5E-7 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 241 | 276 | 1.2E-5 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 84 | 121 | 5.4E-8 | IPR001680 |
| Pfam | PF06957 | Coatomer (COPI) alpha subunit C-terminus | 815 | 1216 | 2.1E-165 | IPR010714 |
| SUPERFAMILY | SSF50978 | WD40 repeat-like | 4 | 315 | 2.45E-72 | IPR036322 |
| SUPERFAMILY | SSF82171 | DPP6 N-terminal domain-like | 323 | 593 | 5.89E-8 | - |
| Gene3D | G3DSA:2.130.10.10 | - | 1 | 319 | 7.8E-125 | IPR015943 |
| Gene3D | G3DSA:1.25.40.470 | - | 640 | 812 | 1.3E-64 | - |
| SMART | SM00320 | WD40_4 | 82 | 121 | 8.5E-9 | IPR001680 |
| SMART | SM00320 | WD40_4 | 40 | 79 | 9.2E-7 | IPR001680 |
| SMART | SM00320 | WD40_4 | 237 | 276 | 3.1E-6 | IPR001680 |
| SMART | SM00320 | WD40_4 | 124 | 163 | 2.6E-10 | IPR001680 |
| SMART | SM00320 | WD40_4 | 193 | 232 | 2.4E-6 | IPR001680 |
| SMART | SM00320 | WD40_4 | 279 | 317 | 39.0 | IPR001680 |
| SMART | SM00320 | WD40_4 | 2 | 37 | 31.0 | IPR001680 |
| PIRSF | PIRSF003354 | Alpha-COP | 1 | 1212 | 0.0 | IPR016391 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 244 | 285 | 15.320672 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 131 | 172 | 14.919653 | IPR001680 |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 200 | 234 | 10.706503 | - |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 244 | 276 | 11.81377 | - |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 131 | 165 | 12.156496 | - |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 200 | 241 | 13.148488 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 89 | 130 | 13.783434 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 47 | 88 | 12.714052 | IPR001680 |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 89 | 121 | 10.943775 | - |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 47 | 79 | 10.363778 | - |
| ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 150 | 164 | - | IPR019775 |
| PRINTS | PR00320 | G protein beta WD-40 repeat signature | 108 | 122 | 3.9E-7 | IPR020472 |
| PRINTS | PR00320 | G protein beta WD-40 repeat signature | 263 | 277 | 3.9E-7 | IPR020472 |
| PRINTS | PR00320 | G protein beta WD-40 repeat signature | 150 | 164 | 3.9E-7 | IPR020472 |
| Coils | Coil | Coil | 1130 | 1150 | - | - |
Gene Ontology
Biological Process:
Molecular Function:
Cellular Component:
KEGG Pathway
KO Term:
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT1G62020.1 | Coatomer, alpha subunit. | 0 |
| RefSeq | XP_017228078.1 | PREDICTED: coatomer subunit alpha-1-like [Daucus carota subsp. sativus] | 0 |
| Q94A40 | Coatomer subunit alpha-1 OS=Arabidopsis thaliana OX=3702 GN=At1g62020 PE=2 SV=2 | 0 | |
| TrEMBL | A0A166GFB3 | Coatomer subunit alpha OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_001550 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 53.076599 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 39.295895 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 36.608395 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 39.292553 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 43.19392 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 24.985064 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 25.512928 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 13.978363 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 75.747917 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 74.654625 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 81.879562 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 80.91497 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 78.185814 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 65.083206 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 40.831173 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 43.41655 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 39.25647 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 46.544659 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 38.108177 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 45.89056 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 47.396626 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 52.734688 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 51.270313 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 45.478916 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 44.991436 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 57.034931 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 45.777328 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 40.98737 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 54.246456 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 16.859499 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 19.864515 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 22.504803 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 49.085522 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 43.405148 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 45.068523 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 42.774956 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 20.764025 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 29.317686 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 41.772118 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 28.41301 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 16.100088 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 34.842926 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 26.67853 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 33.08427 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 33.197186 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 34.969051 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 35.497581 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 34.993473 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 32.671665 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 31.343353 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology