Basic Information
Locus ID:
Ag4G00025
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
WD-40 repeat family protein
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr4 | 975192 | 985118 | + | Ag4G00025 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 9.00 | 64,549.42 Da | 55.36 | 82.61 | -0.53 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| Pfam | PF00400 | WD domain, G-beta repeat | 509 | 532 | 0.0071 | IPR001680 |
| SUPERFAMILY | SSF50978 | WD40 repeat-like | 257 | 576 | 7.56E-35 | IPR036322 |
| Gene3D | G3DSA:2.130.10.10 | - | 463 | 578 | 1.0E-9 | IPR015943 |
| Gene3D | G3DSA:2.130.10.10 | - | 156 | 461 | 1.5E-24 | IPR015943 |
| SMART | SM00320 | WD40_4 | 537 | 576 | 1.2 | IPR001680 |
| SMART | SM00320 | WD40_4 | 349 | 392 | 0.92 | IPR001680 |
| SMART | SM00320 | WD40_4 | 248 | 289 | 0.28 | IPR001680 |
| SMART | SM00320 | WD40_4 | 487 | 532 | 39.0 | IPR001680 |
| SMART | SM00320 | WD40_4 | 398 | 439 | 7.9 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 256 | 298 | 9.171722 | IPR001680 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 25 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 7 | 25 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 183 | 205 | - | - |
| Coils | Coil | Coil | 51 | 85 | - | - |
Gene Ontology
Molecular Function:
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT5G50970.1 | transducin family protein / WD-40 repeat family protein. | 0 |
| RefSeq | XP_017250182.1 | PREDICTED: uncharacterized protein LOC108220829 [Daucus carota subsp. sativus] | 0 |
| TrEMBL | A0A164XF72 | WD_REPEATS_REGION domain-containing protein OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_016341 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 15.472443 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 3.113414 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 3.655556 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 2.983638 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 1.685253 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 1.97481 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 6.478529 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 3.816701 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 5.056695 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 4.208082 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 6.162569 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 9.6659 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 4.998207 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 5.311043 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 1.841526 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 1.255363 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 3.495685 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 2.755123 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 3.897484 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 1.333209 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 2.818451 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 3.275862 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 4.851486 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 4.681225 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 4.776148 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 3.521073 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 3.634297 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 4.258116 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 1.946363 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 1.297559 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 1.448271 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 1.111486 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 1.302773 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 6.11896 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 1.324035 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 1.477832 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 1.351904 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 1.19166 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 3.043746 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 1.131214 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 1.270193 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 10.291833 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 1.914231 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 6.096968 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 9.56101 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 10.076552 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 8.861716 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 5.126696 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 3.862199 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 4.72362 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 1 | jg18379 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_13943 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah001525 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg30848, Sbi_jg58417 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg28294 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00004870 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl54954, Sgl60213 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000007564, gene:ENSEOMG00000023546 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.5AG0018080, CQ.Regalona.r1.5BG0019230 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30012590 |
| Apiaceae | Apium graveolens | 3 | Ag4G00025, Ag4G00051, Ag9G01226 |
| Arecaceae | Cocos nucifera | 2 | contig69058962G000010, scaffold030607G000010 |
| Arecaceae | Phoenix dactylifera | 1 | gene-LOC103715359 |
| Asparagaceae | Asparagus officinalis | 2 | AsparagusV1_04.1628.V1.1, AsparagusV1_10.386.V1.1 |
| Asteraceae | Flaveria trinervia | 1 | Ftri16G02735 |
| Brassicaceae | Arabidopsis thaliana | 2 | AT5G19920.1, AT5G50970.1 |
| Brassicaceae | Eutrema salsugineum | 2 | Thhalv10013007m.g.v1.0, Thhalv10013209m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 2 | Sp6g13140.v2.2, Sp6g24460.v2.2 |
| Brassicaceae | Brassica nigra | 3 | BniB02g042800.2N, BniB05g043450.2N, BniB08g018260.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq01G1936 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl01G2101 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno08g00020 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate09g11840 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG05.556 |
| Plumbaginaceae | Limonium bicolor | 3 | Lb4G24229, Lb4G25721, Lb5G27028 |
| Poaceae | Echinochloa crus-galli | 3 | AH01.597, BH01.129, CH09.3330 |
| Poaceae | Eleusine coracana subsp. coracana | 1 | gene-QOZ80_3BG0253150 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.5HG0535010.1 |
| Poaceae | Oryza coarctata | 2 | Oco05G029050, Oco06G030070 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_01G008900 |
| Poaceae | Puccinellia tenuiflora | 2 | Pt_Chr0106584, Pt_Chr0106609 |
| Poaceae | Sporobolus alterniflorus | 2 | Chr01G000350, Chr12G031770 |
| Poaceae | Thinopyrum elongatum | 1 | Tel5E01G861400 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC4AG049630, gene_TRIDC5BG081340 |
| Poaceae | Triticum aestivum | 3 | TraesCS4A02G328700.2, TraesCS5B02G542700.2 ... |
| Poaceae | Zea mays | 2 | Zm00001eb064630_P001, Zm00001eb210690_P001 |
| Poaceae | Zoysia japonica | 1 | nbis-gene-16760 |
| Poaceae | Zoysia macrostachya | 2 | Zma_g2357, Zma_g45 |
| Portulacaceae | Portulaca oleracea | 3 | evm.TU.LG01.2733, evm.TU.LG02.157, evm.TU.LG09.1395 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc05g00030 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_4_RagTag.303 |
| Rhizophoraceae | Carallia pectinifolia | 1 | nbisL1-mrna-29055 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-6907 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-2002 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000008l.191 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00000403 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-14717 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-1305 |
| Salicaceae | Populus euphratica | 4 | populus_peu28958, populus_peu28959, populus_peu30366 ... |
| Solanaceae | Lycium barbarum | 2 | gene-LOC132603604, gene-LOC132633158 |
| Solanaceae | Solanum chilense | 1 | SOLCI005895300 |
| Solanaceae | Solanum pennellii | 2 | gene-LOC107005175, gene-LOC107013032 |
| Tamaricaceae | Reaumuria soongarica | 1 | gene_16051 |
| Tamaricaceae | Tamarix chinensis | 1 | TC09G0758 |
| Zosteraceae | Zostera marina | 1 | Zosma06g07820.v3.1 |