Basic Information
Locus ID:
Ag3G01226
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
WD repeat domain-containing protein
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr3 | 63977877 | 63983120 | + | Ag3G01226 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 6.59 | 32,892.60 Da | 35.31 | 75.22 | -0.29 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd00200 | WD40 | 13 | 298 | 7.47304E-66 | - |
| Pfam | PF00400 | WD domain, G-beta repeat | 13 | 46 | 8.2E-7 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 52 | 88 | 0.0032 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 93 | 130 | 1.5E-5 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 263 | 298 | 4.5E-7 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 216 | 256 | 0.014 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 185 | 210 | 0.15 | IPR001680 |
| SUPERFAMILY | SSF50978 | WD40 repeat-like | 7 | 298 | 3.33E-75 | IPR036322 |
| Gene3D | G3DSA:2.130.10.10 | - | 12 | 183 | 1.8E-46 | IPR015943 |
| Gene3D | G3DSA:2.130.10.10 | - | 184 | 299 | 2.3E-25 | IPR015943 |
| SMART | SM00320 | WD40_4 | 91 | 130 | 1.3E-7 | IPR001680 |
| SMART | SM00320 | WD40_4 | 49 | 88 | 5.6E-5 | IPR001680 |
| SMART | SM00320 | WD40_4 | 176 | 212 | 2.5 | IPR001680 |
| SMART | SM00320 | WD40_4 | 215 | 256 | 0.44 | IPR001680 |
| SMART | SM00320 | WD40_4 | 7 | 46 | 1.2E-9 | IPR001680 |
| SMART | SM00320 | WD40_4 | 259 | 298 | 1.6E-9 | IPR001680 |
| SMART | SM00320 | WD40_4 | 135 | 172 | 0.41 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 56 | 97 | 12.346452 | IPR001680 |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 266 | 299 | 14.318304 | - |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 98 | 130 | 11.629227 | - |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 56 | 93 | 9.309238 | - |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 14 | 55 | 13.816853 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 266 | 299 | 15.788527 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 98 | 130 | 14.05078 | IPR001680 |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 14 | 46 | 11.391954 | - |
Gene Ontology
Molecular Function:
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT5G64730.1 | Transducin/WD40 repeat-like superfamily protein. | 0 |
| RefSeq | XP_017243204.1 | PREDICTED: WD repeat domain-containing protein 83 [Daucus carota subsp. sativus] | 0 |
| Q5BLX8 | WD repeat domain-containing protein 83 OS=Rattus norvegicus OX=10116 GN=Wdr83 PE=1 SV=1 | 0 | |
| TrEMBL | A0A166BPR0 | WD_REPEATS_REGION domain-containing protein OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_011471 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 6.301377 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 5.02573 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 4.723038 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 4.28455 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 4.776991 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 6.664231 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 3.294556 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 3.074534 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 10.397947 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 12.359704 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 11.200381 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 14.037132 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 11.357826 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 14.043793 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 7.058799 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 6.469468 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 7.506344 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 4.971323 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 4.160719 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 5.955355 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 5.104824 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 6.530579 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 10.203821 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 10.862477 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 8.486174 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 5.363248 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 6.530508 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 4.953051 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 7.638794 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 4.391822 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 6.355355 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 6.378346 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 7.722764 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 12.125707 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 8.663162 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 5.25675 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 3.747107 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 5.595376 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 5.956594 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 2.491138 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 2.99191 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 9.128824 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 6.364962 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 6.352458 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 7.922671 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 9.198509 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 6.586745 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 15.085344 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 13.675133 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 12.155547 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 1 | jg31172 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_8209 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah027164 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_6g133420 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg30890, Sbi_jg58386 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg28266 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00009957 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl33712, Sgl39023 |
| Amaranthaceae | Chenopodium album | 1 | gene:ENSEOMG00000005744 |
| Amaranthaceae | Chenopodium quinoa | 1 | CQ.Regalona.r1.6AG0022690 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30199970 |
| Apiaceae | Apium graveolens | 1 | Ag3G01226 |
| Arecaceae | Cocos nucifera | 1 | COCNU_15G001820 |
| Arecaceae | Phoenix dactylifera | 1 | gene-LOC103701229 |
| Asparagaceae | Asparagus officinalis | 1 | AsparagusV1_08.1674.V1.1 |
| Asteraceae | Flaveria trinervia | 1 | Ftri6G19286 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT5G64730.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10004678m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp2g27800.v2.2 |
| Brassicaceae | Brassica nigra | 2 | BniB06g013010.2N, BniB06g013040.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq06G1863 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl06G1928 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno05g00430 |
| Dunaliellaceae | Dunaliella salina | 1 | Dusal.0068s00026.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate09g01760 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 1 | nbisL1-mrna-2160 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG02.800 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00014391 |
| Plumbaginaceae | Limonium bicolor | 1 | Lb5G27575 |
| Poaceae | Echinochloa crus-galli | 3 | AH07.2131, BH07.2093, CH07.1990 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_2AG0133380, gene-QOZ80_2BG0188940 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.6HG0600920.1 |
| Poaceae | Lolium multiflorum | 1 | gene-QYE76_022886 |
| Poaceae | Oryza coarctata | 1 | Oco03G012080 |
| Poaceae | Oryza sativa | 1 | LOC_Os02g33860.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_04G157300 |
| Poaceae | Sporobolus alterniflorus | 2 | Chr09G014720, Chr13G010740 |
| Poaceae | Thinopyrum elongatum | 1 | Tel6E01G468300 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC6AG038550, gene_TRIDC6BG045440 |
| Poaceae | Triticum aestivum | 3 | TraesCS6A02G250200.1, TraesCS6B02G275200.2 ... |
| Poaceae | Zea mays | 1 | Zm00001eb181820_P001 |
| Poaceae | Zoysia japonica | 1 | nbis-gene-18851 |
| Poaceae | Zoysia macrostachya | 1 | Zma_g16445 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG07.331, evm.TU.LG15.619 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc01g01410 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_3_RagTag.971 |
| Rhizophoraceae | Carallia pectinifolia | 1 | nbisL1-mrna-1080 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-16394 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-2267 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000019l.645 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00002276 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-5104 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-1684 |
| Salicaceae | Populus euphratica | 2 | populus_peu01474, populus_peu01492 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132613909 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107002924 |
| Tamaricaceae | Reaumuria soongarica | 1 | gene_11092 |
| Tamaricaceae | Tamarix chinensis | 1 | TC04G0467 |
| Zosteraceae | Zostera marina | 1 | Zosma01g42170.v3.1 |