Basic Information
Locus ID:
Ag9G00084
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
WD domain, G-beta repeat
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr9 | 3947621 | 3954428 | - | Ag9G00084 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 9.23 | 53,211.41 Da | 37.92 | 75.68 | -0.36 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| Pfam | PF00400 | WD domain, G-beta repeat | 205 | 240 | 1.1E-8 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 438 | 474 | 0.014 | IPR001680 |
| SUPERFAMILY | SSF50978 | WD40 repeat-like | 169 | 476 | 4.88E-43 | IPR036322 |
| Gene3D | G3DSA:2.130.10.10 | - | 255 | 404 | 3.7E-9 | IPR015943 |
| Gene3D | G3DSA:2.130.10.10 | - | 158 | 254 | 1.6E-18 | IPR015943 |
| Gene3D | G3DSA:2.130.10.10 | - | 405 | 479 | 1.9E-13 | IPR015943 |
| SMART | SM00320 | WD40_4 | 157 | 197 | 310.0 | IPR001680 |
| SMART | SM00320 | WD40_4 | 285 | 323 | 72.0 | IPR001680 |
| SMART | SM00320 | WD40_4 | 435 | 474 | 1.4E-5 | IPR001680 |
| SMART | SM00320 | WD40_4 | 394 | 430 | 150.0 | IPR001680 |
| SMART | SM00320 | WD40_4 | 201 | 240 | 1.1E-9 | IPR001680 |
| SMART | SM00320 | WD40_4 | 243 | 282 | 11.0 | IPR001680 |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 442 | 479 | 10.07378 | - |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 208 | 244 | 12.710129 | - |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 442 | 479 | 10.408196 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 208 | 249 | 16.022453 | IPR001680 |
| ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 227 | 241 | - | IPR019775 |
Gene Ontology
Molecular Function:
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT2G16405.1 | Transducin/WD40 repeat-like superfamily protein. | 0 |
| RefSeq | XP_017230428.1 | PREDICTED: WD repeat-containing protein 13 [Daucus carota subsp. sativus] | 0 |
| Q9H1Z4 | WD repeat-containing protein 13 OS=Homo sapiens OX=9606 GN=WDR13 PE=1 SV=3 | 0 | |
| TrEMBL | A0A166IYW1 | WD_REPEATS_REGION domain-containing protein OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_004295 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 17.821133 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 12.813109 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 13.194734 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 15.160452 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 12.867693 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 12.062665 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 14.149634 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 13.744103 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 10.697888 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 11.82874 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 11.265648 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 12.329756 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 13.056311 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 12.509261 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 12.846553 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 15.409596 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 12.294708 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 9.337996 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 9.238952 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 10.938031 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 11.78248 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 12.14568 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 11.20018 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 9.464185 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 12.98039 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 10.656941 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 12.233153 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 10.05186 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 13.592148 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 1.753132 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 2.590934 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 3.33779 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 5.620934 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 9.241332 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 7.08172 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 4.231835 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 2.169242 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 2.940608 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 5.316835 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 3.979577 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 2.779189 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 15.715495 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 8.449156 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 8.609234 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 7.581917 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 14.279161 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 8.289033 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 16.267723 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 16.731901 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 15.836449 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 1 | jg28789 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_21675 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah010181 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_9g216960 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg12390, Sbi_jg45952 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg20283 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00022488 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl56162, Sgl61603 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000020089, gene:ENSEOMG00000038701 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.7BG0007200, CQ.Regalona.r1.9AG0017380 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30115330 |
| Apiaceae | Apium graveolens | 1 | Ag9G00084 |
| Arecaceae | Cocos nucifera | 1 | COCNU_06G013210 |
| Arecaceae | Phoenix dactylifera | 1 | gene-LOC103717803 |
| Asparagaceae | Asparagus officinalis | 1 | AsparagusV1_07.2882.V1.1 |
| Asteraceae | Flaveria trinervia | 1 | Ftri3G14695 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT2G16405.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10022667m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp3g29690.v2.2 |
| Brassicaceae | Brassica nigra | 1 | BniB03g063620.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq07G1544 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl07G1641 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno01g02080 |
| Dunaliellaceae | Dunaliella salina | 1 | Dusal.0098s00011.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate02g41770 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 1 | nbisL1-mrna-5654 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG08.189 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00007478 |
| Plumbaginaceae | Limonium bicolor | 4 | Lb0G37357, Lb3G17342, Lb7G34925, Lb7G34926 |
| Poaceae | Echinochloa crus-galli | 3 | AH02.3461, BH02.3492, CH02.3036 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_1AG0035400, gene-QOZ80_1BG0085470 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.3HG0293010.1 |
| Poaceae | Lolium multiflorum | 1 | gene-QYE76_056176 |
| Poaceae | Oryza coarctata | 2 | Oco01G021700, Oco02G022300 |
| Poaceae | Oryza sativa | 1 | LOC_Os01g56860.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_03G294500 |
| Poaceae | Puccinellia tenuiflora | 2 | Pt_Chr0601577, Pt_Chr0601607 |
| Poaceae | Sporobolus alterniflorus | 2 | Chr02G008180, Chr05G025360 |
| Poaceae | Thinopyrum elongatum | 1 | Tel3E01G507800 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC3AG045830, gene_TRIDC3BG051940 |
| Poaceae | Triticum aestivum | 3 | TraesCS3A02G320200.1, TraesCS3B02G345700.1 ... |
| Poaceae | Zea mays | 1 | Zm00001eb151660_P002 |
| Poaceae | Zoysia japonica | 1 | nbis-gene-31233 |
| Poaceae | Zoysia macrostachya | 1 | Zma_g11267 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG08.1783, evm.TU.LG22.66 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc03g04060 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_1_RagTag.2238 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-17195 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-3311 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000016l.122 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00016571 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-4683 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-14159 |
| Salicaceae | Populus euphratica | 1 | populus_peu08827 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132599205 |
| Solanaceae | Solanum chilense | 1 | SOLCI007336600 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107005248 |
| Tamaricaceae | Reaumuria soongarica | 1 | gene_16844 |
| Tamaricaceae | Tamarix chinensis | 1 | TC12G1004 |
| Zosteraceae | Zostera marina | 1 | Zosma06g23550.v3.1 |