Basic Information
Locus ID:
Ag5G02640
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
WD40 repeats
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr5 | 309095459 | 309102996 | + | Ag5G02640 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 6.25 | 81,930.55 Da | 54.86 | 84.21 | -0.24 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| Pfam | PF00400 | WD domain, G-beta repeat | 103 | 126 | 0.046 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 130 | 169 | 0.0049 | IPR001680 |
| SUPERFAMILY | SSF50978 | WD40 repeat-like | 607 | 721 | 5.43E-5 | IPR036322 |
| SUPERFAMILY | SSF50978 | WD40 repeat-like | 102 | 244 | 8.24E-27 | IPR036322 |
| Gene3D | G3DSA:2.130.10.10 | - | 99 | 352 | 2.2E-30 | IPR015943 |
| SMART | SM00320 | WD40_4 | 88 | 126 | 0.58 | IPR001680 |
| SMART | SM00320 | WD40_4 | 129 | 169 | 1.1E-7 | IPR001680 |
| SMART | SM00320 | WD40_4 | 679 | 719 | 6.4 | IPR001680 |
| SMART | SM00320 | WD40_4 | 172 | 209 | 1.5 | IPR001680 |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 136 | 174 | 8.861059 | - |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 136 | 178 | 11.510997 | IPR001680 |
| ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 156 | 170 | - | IPR019775 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 309 | 333 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 315 | 333 | - | - |
Gene Ontology
Molecular Function:
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT1G04140.1 | Transducin family protein / WD-40 repeat family protein. | 0 |
| RefSeq | XP_017218917.1 | PREDICTED: uncharacterized protein LOC108196235 [Daucus carota subsp. sativus] | 0 |
| B0XYC8 | Eukaryotic translation initiation factor 3 subunit I OS=Aspergillus fumigatus (strain CBS 144.89 / FGSC A1163 / CEA10) OX=451804 GN=tif34 PE=3 SV=1 | 0 | |
| TrEMBL | A0A164T7M9 | WD_REPEATS_REGION domain-containing protein OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_024302 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 27.748489 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 25.180124 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 28.696404 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 28.588148 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 28.973082 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 32.576973 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 30.820494 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 27.159878 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 44.06834 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 46.085487 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 45.904964 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 42.225025 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 43.699432 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 38.230072 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 46.213078 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 43.237724 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 37.636463 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 52.816811 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 38.265907 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 57.4492 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 49.993729 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 38.178261 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 38.310947 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 35.403378 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 38.778385 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 52.645752 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 45.85323 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 38.68375 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 52.483074 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 47.560173 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 46.1007 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 43.850193 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 80.696053 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 35.701126 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 62.199486 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 49.154404 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 29.107298 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 35.217098 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 46.326439 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 42.873417 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 30.316719 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 43.048958 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 54.57798 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 109.410706 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 93.70797 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 38.92149 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 78.31234 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 21.631453 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 28.583031 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 24.028191 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 2 | jg12791, jg27713 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_4411 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah021037 |
| Amaranthaceae | Salicornia bigelovii | 3 | Sbi_jg59642, Sbi_jg62989, Sbi_jg62995 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg23895 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00029071 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl03175, Sgl08283 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000013133, gene:ENSEOMG00000031680 ... |
| Amaranthaceae | Chenopodium quinoa | 3 | CQ.Regalona.r1.3AG0017690, CQ.Regalona.r1.3AG0017710 ... |
| Anacardiaceae | Pistacia vera | 2 | pistato.v30015180, pistato.v30240170 |
| Apiaceae | Apium graveolens | 2 | Ag10G00844, Ag5G02640 |
| Arecaceae | Cocos nucifera | 1 | COCNU_09G009300 |
| Arecaceae | Phoenix dactylifera | 2 | gene-LOC103706953, gene-LOC103711861 |
| Asparagaceae | Asparagus officinalis | 2 | AsparagusV1_04.210.V1.1, AsparagusV1_07.2002.V1.1 |
| Asteraceae | Flaveria trinervia | 2 | Ftri10G29649, Ftri11G15736 |
| Brassicaceae | Arabidopsis thaliana | 2 | AT1G04140.2, AT5G43930.4 |
| Brassicaceae | Eutrema salsugineum | 2 | Thhalv10003374m.g.v1.0, Thhalv10006848m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 2 | Sp1g02960.v2.2, Sp2g08750.v2.2 |
| Brassicaceae | Brassica nigra | 5 | BniB01g041790.2N, BniB02g001530.2N, BniB02g061240.2N ... |
| Casuarinaceae | Casuarina equisetifolia | 2 | Ceq06G2281, Ceq07G1212 |
| Casuarinaceae | Casuarina glauca | 2 | Cgl06G2391, Cgl07G1277 |
| Cymodoceaceae | Cymodocea nodosa | 4 | gene.Cymno09g10170, gene.Cymno13g04070, gene.Cymno16g00420 ... |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate08g24110 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG04.1643 |
| Plantaginaceae | Plantago ovata | 2 | Pov_00021484, Pov_00025142 |
| Plumbaginaceae | Limonium bicolor | 2 | Lb3G20530, Lb3G20532 |
| Poaceae | Echinochloa crus-galli | 6 | AH03.1461, AH07.1420, BH03.1607, BH07.1384, CH03.1764 ... |
| Poaceae | Eleusine coracana subsp. coracana | 4 | gene-QOZ80_2AG0109850, gene-QOZ80_2BG0163280 ... |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.5HG0535330.1 |
| Poaceae | Lolium multiflorum | 1 | gene-QYE76_060547 |
| Poaceae | Oryza coarctata | 3 | Oco03G007980, Oco04G008350, Oco18G001920 |
| Poaceae | Oryza sativa | 2 | LOC_Os02g18820.2, LOC_Os09g12550.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_04G124600 |
| Poaceae | Puccinellia tenuiflora | 1 | Pt_Chr0105896 |
| Poaceae | Sporobolus alterniflorus | 6 | Chr06G031410, Chr10G002780, Chr11G016010, Chr14G006560 ... |
| Poaceae | Thinopyrum elongatum | 3 | Tel5E01G864200, Tel5E01G864300, Tel5E01G864400 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC4AG049440, gene_TRIDC5BG081650 |
| Poaceae | Triticum aestivum | 3 | TraesCS4A02G326800.1, TraesCS5B02G539500.2 ... |
| Poaceae | Zea mays | 3 | Zm00001eb087120_P001, Zm00001eb097650_P003 ... |
| Poaceae | Zoysia japonica | 2 | nbis-gene-34084, nbis-gene-50997 |
| Poaceae | Zoysia macrostachya | 2 | Zma_g12602, Zma_g15318 |
| Portulacaceae | Portulaca oleracea | 4 | evm.TU.LG07.1031, evm.TU.LG13.987, evm.TU.LG15.958 ... |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc04g00130 |
| Rhizophoraceae | Bruguiera sexangula | 3 | evm.TU.Scaffold_5_RagTag.1160, evm.TU.Scaffold_9_RagTag.1067 ... |
| Rhizophoraceae | Carallia pectinifolia | 3 | nbisL1-mrna-11631, nbisL1-mrna-21116, nbisL1-mrna-21117 |
| Rhizophoraceae | Ceriops tagal | 2 | nbisL1-mrna-6120, nbisL1-mrna-8996 |
| Rhizophoraceae | Ceriops zippeliana | 2 | nbisL1-mrna-10238, nbisL1-mrna-7269 |
| Rhizophoraceae | Kandelia candel | 2 | evm.TU.utg000003l.422, evm.TU.utg000006l.420 |
| Rhizophoraceae | Kandelia obovata | 2 | Maker00009913, Maker00013529 |
| Rhizophoraceae | Rhizophora apiculata | 2 | nbisL1-mrna-1407, nbisL1-mrna-9876 |
| Rhizophoraceae | Rhizophora mangle | 2 | nbisL1-mrna-19861, nbisL1-mrna-4990 |
| Salicaceae | Populus euphratica | 4 | populus_peu26661, populus_peu26721, populus_peu26722 ... |
| Solanaceae | Lycium barbarum | 2 | gene-LOC132610352, gene-LOC132640307 |
| Solanaceae | Solanum chilense | 2 | SOLCI004656900, SOLCI006663000 |
| Solanaceae | Solanum pennellii | 2 | gene-LOC107020573, gene-LOC107031074 |
| Tamaricaceae | Reaumuria soongarica | 1 | gene_13271 |
| Tamaricaceae | Tamarix chinensis | 1 | TC02G0142 |
| Zosteraceae | Zostera marina | 1 | Zosma01g38140.v3.1 |