Basic Information
Locus ID:
Ag10G01067
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
WD repeat-containing protein
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr10 | 158808898 | 158818396 | + | Ag10G01067 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 6.56 | 102,458.73 Da | 44.42 | 91.00 | -0.14 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| Pfam | PF00400 | WD domain, G-beta repeat | 471 | 502 | 0.26 | IPR001680 |
| Pfam | PF12894 | Anaphase-promoting complex subunit 4 WD40 domain | 190 | 277 | 2.2E-6 | IPR024977 |
| Pfam | PF00400 | WD domain, G-beta repeat | 550 | 585 | 1.0E-10 | IPR001680 |
| Pfam | PF04192 | Utp21 specific WD40 associated putative domain | 685 | 915 | 1.1E-59 | IPR007319 |
| SUPERFAMILY | SSF50978 | WD40 repeat-like | 20 | 341 | 1.01E-38 | IPR036322 |
| SUPERFAMILY | SSF50952 | Soluble quinoprotein glucose dehydrogenase | 222 | 585 | 5.89E-41 | IPR011041 |
| Gene3D | G3DSA:2.130.10.10 | - | 3 | 629 | 1.4E-226 | IPR015943 |
| Gene3D | G3DSA:2.130.10.10 | - | 13 | 313 | 1.4E-226 | IPR015943 |
| SMART | SM00320 | WD40_4 | 303 | 342 | 0.057 | IPR001680 |
| SMART | SM00320 | WD40_4 | 170 | 209 | 0.014 | IPR001680 |
| SMART | SM00320 | WD40_4 | 546 | 585 | 8.2E-11 | IPR001680 |
| SMART | SM00320 | WD40_4 | 459 | 502 | 0.065 | IPR001680 |
| SMART | SM00320 | WD40_4 | 256 | 296 | 0.026 | IPR001680 |
| SMART | SM00320 | WD40_4 | 82 | 119 | 190.0 | IPR001680 |
| SMART | SM00320 | WD40_4 | 213 | 253 | 2.3E-4 | IPR001680 |
| SMART | SM00320 | WD40_4 | 504 | 543 | 13.0 | IPR001680 |
| SMART | SM00320 | WD40_4 | 591 | 627 | 290.0 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 264 | 295 | 11.44416 | IPR001680 |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 264 | 295 | 9.572873 | - |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 553 | 586 | 13.052855 | - |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 220 | 262 | 9.639578 | IPR001680 |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 470 | 504 | 8.755605 | - |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 553 | 586 | 15.855363 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 470 | 504 | 10.408196 | IPR001680 |
| ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 489 | 503 | - | IPR019775 |
| ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 572 | 586 | - | IPR019775 |
Gene Ontology
Biological Process:
Molecular Function:
Cellular Component:
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT4G04940.1 | transducin family protein / WD-40 repeat family protein. | 0 |
| RefSeq | XP_017247784.1 | PREDICTED: U3 small nucleolar RNA-associated protein 21 homolog [Daucus carota subsp. sativus] | 0 |
| O14053 | U3 small nucleolar RNA-associated protein 21 homolog OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) OX=284812 GN=SPCC1672.07 PE=3 SV=1 | 0 | |
| TrEMBL | A0A165WDQ1 | WD_REPEATS_REGION domain-containing protein OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_015254 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 7.863781 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 6.751938 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 4.300396 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 4.415812 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 4.861682 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 3.743835 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 4.87556 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 4.237764 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 9.673799 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 11.555744 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 11.39743 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 11.629826 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 11.310851 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 8.337217 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 1.523764 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 2.731853 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 4.647792 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 4.770504 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 4.073863 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 8.611369 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 7.519539 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 7.52713 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 9.529619 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 9.18238 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 9.216439 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 8.053766 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 6.41328 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 6.071673 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 8.758095 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 1.745354 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 3.276628 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 2.823012 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 4.917437 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 4.960164 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 6.326848 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 2.137088 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 1.371271 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 1.190597 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 3.873969 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 1.806983 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 0.394691 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 5.807161 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 3.875466 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 14.61797 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 6.893225 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 11.291883 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 5.845656 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 10.785308 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 7.507643 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 6.334267 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 2 | jg12839, jg29849 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_24889 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah024352 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_6g143360 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg42115, Sbi_jg44687 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg27408 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00006085 |
| Amaranthaceae | Suaeda glauca | 4 | Sgl78992, Sgl78993, Sgl81444, Sgl81445 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000000401, gene:ENSEOMG00000002482 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.6AG0012000, CQ.Regalona.r1.6BG0012710 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30148330 |
| Apiaceae | Apium graveolens | 1 | Ag10G01067 |
| Arecaceae | Cocos nucifera | 1 | COCNU_01G018740 |
| Arecaceae | Phoenix dactylifera | 1 | gene-LOC103704318 |
| Asparagaceae | Asparagus officinalis | 3 | AsparagusV1_01.2316.V1.1, AsparagusV1_05.3308.V1.1 ... |
| Asteraceae | Flaveria trinervia | 1 | Ftri12G04057 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT4G04940.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10028405m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp6g04020.v2.2 |
| Brassicaceae | Brassica nigra | 1 | BniB08g038330.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq03G2674 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl03G2807 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno05g09420 |
| Dunaliellaceae | Dunaliella salina | 1 | Dusal.0063s00009.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate05g00320 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG05.1205 |
| Plantaginaceae | Plantago ovata | 2 | Pov_00013815, Pov_00024817 |
| Plumbaginaceae | Limonium bicolor | 1 | Lb3G16845 |
| Poaceae | Echinochloa crus-galli | 4 | AH05.2305, AH06.2437, BH06.2236, CH06.2454 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_6AG0546270, gene-QOZ80_6BG0499640 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.7HG0745010.2 |
| Poaceae | Lolium multiflorum | 1 | gene-QYE76_036701 |
| Poaceae | Oryza coarctata | 2 | Oco11G013750, Oco12G013930 |
| Poaceae | Oryza sativa | 1 | LOC_Os06g43690.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_10G205900 |
| Poaceae | Puccinellia tenuiflora | 1 | Pt_Chr0401603 |
| Poaceae | Sporobolus alterniflorus | 4 | Chr02G030800, Chr05G008540, Chr10G018890, Chr11G003690 |
| Poaceae | Thinopyrum elongatum | 2 | Tel1E01G101900, Tel7E01G897200 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC7AG072550, gene_TRIDC7BG068730 |
| Poaceae | Triticum aestivum | 3 | TraesCS7A02G517200.1, TraesCS7B02G433500.1 ... |
| Poaceae | Zea mays | 1 | Zm00001eb386980_P002 |
| Poaceae | Zoysia japonica | 1 | nbis-gene-40913 |
| Poaceae | Zoysia macrostachya | 1 | Zma_g33135 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG18.1705, evm.TU.LG20.182 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc01g20890 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_10_RagTag.14 |
| Rhizophoraceae | Carallia pectinifolia | 1 | nbisL1-mrna-12824 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-3362 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-16463 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000033l.6 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00014733 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-16769 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-14420 |
| Salicaceae | Populus euphratica | 1 | populus_peu11233 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132644782 |
| Solanaceae | Solanum chilense | 1 | SOLCI002046900 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107007990 |
| Tamaricaceae | Reaumuria soongarica | 3 | STRG.20149_chr07_+, gene_12896, gene_16102 |
| Tamaricaceae | Tamarix chinensis | 1 | TC04G0051 |
| Zosteraceae | Zostera marina | 1 | Zosma01g23810.v3.1 |