Basic Information
Locus ID:
Ag4G01130
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
F-box-like WD repeat-containing protein
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr4 | 122002841 | 122011066 | + | Ag4G01130 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 7.24 | 62,954.10 Da | 35.57 | 77.75 | -0.58 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd00200 | WD40 | 209 | 515 | 1.76187E-66 | - |
| Pfam | PF00400 | WD domain, G-beta repeat | 427 | 473 | 0.02 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 304 | 340 | 5.1E-4 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 478 | 515 | 1.9E-8 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 386 | 422 | 2.5E-9 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 206 | 241 | 6.2E-7 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 266 | 298 | 0.049 | IPR001680 |
| SUPERFAMILY | SSF50978 | WD40 repeat-like | 206 | 557 | 1.1E-71 | IPR036322 |
| Gene3D | G3DSA:2.130.10.10 | - | 200 | 559 | 3.3E-125 | IPR015943 |
| Gene3D | G3DSA:1.20.960.30 | - | 2 | 92 | 3.8E-22 | - |
| SMART | SM00320 | WD40_4 | 202 | 241 | 2.0E-8 | IPR001680 |
| SMART | SM00320 | WD40_4 | 518 | 556 | 33.0 | IPR001680 |
| SMART | SM00320 | WD40_4 | 301 | 340 | 4.3E-7 | IPR001680 |
| SMART | SM00320 | WD40_4 | 254 | 299 | 3.4 | IPR001680 |
| SMART | SM00320 | WD40_4 | 383 | 422 | 4.2E-11 | IPR001680 |
| SMART | SM00320 | WD40_4 | 476 | 515 | 5.3E-12 | IPR001680 |
| SMART | SM00320 | WD40_4 | 343 | 380 | 280.0 | IPR001680 |
| SMART | SM00320 | WD40_4 | 425 | 473 | 3.2E-6 | IPR001680 |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 209 | 242 | 12.341042 | - |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 308 | 342 | 11.101955 | - |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 390 | 424 | 13.184673 | - |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 209 | 242 | 14.953072 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 308 | 349 | 14.284707 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 483 | 524 | 19.2306 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 460 | 482 | 9.572741 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 390 | 431 | 16.891327 | IPR001680 |
| ProSiteProfiles | PS50896 | LIS1 homology (LisH) motif profile. | 5 | 37 | 7.871242 | IPR006594 |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 483 | 520 | 14.634665 | - |
| ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 327 | 341 | - | IPR019775 |
| ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 228 | 242 | - | IPR019775 |
| ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 460 | 474 | - | IPR019775 |
| PRINTS | PR00320 | G protein beta WD-40 repeat signature | 502 | 516 | 5.1E-8 | IPR020472 |
| PRINTS | PR00320 | G protein beta WD-40 repeat signature | 460 | 474 | 5.1E-8 | IPR020472 |
| PRINTS | PR00320 | G protein beta WD-40 repeat signature | 228 | 242 | 5.1E-8 | IPR020472 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 114 | 177 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 128 | 175 | - | - |
Gene Ontology
Molecular Function:
KEGG Pathway
KO Term:
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT5G67320.1 | WD-40 repeat family protein. Encodes a WD-40 protein involved in histone deacetylation in response to abiotic stress.Identified in a screen for mutations with altered expression of stress induced genes. Functions as a repressor of cold tolerance induced genes. Loss of function mutants are hypersensitive to freezing. | 0 |
| RefSeq | XP_027078632.1 | WD40 repeat-containing protein HOS15-like isoform X1 [Coffea arabica] | 0 |
| Q9FN19 | WD40 repeat-containing protein HOS15 OS=Arabidopsis thaliana OX=3702 GN=HOS15 PE=2 SV=1 | 0 | |
| TrEMBL | A0A068U1X8 | LisH domain-containing protein OS=Coffea canephora OX=49390 GN=GSCOC_T00039960001 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 13.526536 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 6.115569 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 3.307991 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 3.36111 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 3.908492 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 2.208683 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 2.278063 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 1.83348 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 0 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 0.093722 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 0.090455 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 0.31343 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 0.349766 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 0.400018 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 0 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 0 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 0 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 0 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 0 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 0 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 0.043255 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 0 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 0 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 0.200302 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 0 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 0 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 0 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 0.036275 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 0 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 0 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 0 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 0 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 0 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 0.409059 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 0 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 0 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 0.279031 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 0 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 0 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 0 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 0 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 0 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 0 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 0.073239 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 0.215251 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 0 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 0 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 2.352821 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 1.899016 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 1.162137 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 2 | jg22739, jg25393 |
| Aizoaceae | Mesembryanthemum crystallinum | 2 | gene_23966, gene_6088 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah027603 |
| Amaranthaceae | Beta vulgaris | 2 | BVRB_1g015290, BVRB_6g127550 |
| Amaranthaceae | Salicornia bigelovii | 6 | Sbi_jg13095, Sbi_jg39707, Sbi_jg39709, Sbi_jg52757 ... |
| Amaranthaceae | Salicornia europaea | 2 | Seu_jg14621, Seu_jg9089 |
| Amaranthaceae | Suaeda aralocaspica | 3 | GOSA_00010163, GOSA_00013151, GOSA_00013152 |
| Amaranthaceae | Suaeda glauca | 7 | Sgl12492, Sgl12493, Sgl17769, Sgl17770, Sgl33867, Sgl33869 ... |
| Amaranthaceae | Chenopodium album | 2 | gene:ENSEOMG00000001072, gene:ENSEOMG00000027606 |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.6AG0025620, CQ.Regalona.r1.6BG0027140 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30205550 |
| Apiaceae | Apium graveolens | 4 | Ag3G00130, Ag4G01126, Ag4G01128, Ag4G01130 |
| Arecaceae | Cocos nucifera | 1 | COCNU_06G017260 |
| Arecaceae | Phoenix dactylifera | 2 | gene-LOC103700829, gene-LOC103723685 |
| Asparagaceae | Asparagus officinalis | 2 | AsparagusV1_08.1343.V1.1, AsparagusV1_08.2800.V1.1 |
| Asteraceae | Flaveria trinervia | 3 | Ftri17G16281, Ftri9G32452, FtriNA10403 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT5G67320.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10003834m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp2g29340.v2.2 |
| Brassicaceae | Brassica nigra | 2 | BniB06g014530.2N, BniB07g043730.2N |
| Casuarinaceae | Casuarina equisetifolia | 2 | Ceq03G1793, Ceq05G1376 |
| Casuarinaceae | Casuarina glauca | 2 | Cgl03G1933, Cgl05G1380 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno06g01770 |
| Dunaliellaceae | Dunaliella salina | 2 | Dusal.0294s00007.v1.0, Dusal.0640s00007.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate08g14920 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 1 | nbisL1-mrna-10547 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG02.950 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00037030 |
| Plumbaginaceae | Limonium bicolor | 3 | Lb3G21159, Lb3G21163, Lb8G36071 |
| Poaceae | Echinochloa crus-galli | 3 | AH09.220, BH09.304, CH09.332 |
| Poaceae | Eleusine coracana subsp. coracana | 3 | gene-QOZ80_4AG0326450, gene-QOZ80_4BG0358490 ... |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.2HG0147120.1 |
| Poaceae | Lolium multiflorum | 1 | gene-QYE76_006982 |
| Poaceae | Oryza coarctata | 2 | Oco13G006080, Oco14G006590 |
| Poaceae | Oryza sativa | 1 | LOC_Os07g22220.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_06G046400 |
| Poaceae | Sporobolus alterniflorus | 2 | Chr25G015760, Chr30G015690 |
| Poaceae | Thinopyrum elongatum | 1 | Tel2E01G424700 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC2AG031220, gene_TRIDC2BG035760 |
| Poaceae | Triticum aestivum | 3 | TraesCS2A02G227200.3, TraesCS2B02G255700.1 ... |
| Poaceae | Zea mays | 2 | Zm00001eb088250_P001, Zm00001eb419800_P001 |
| Poaceae | Zoysia japonica | 1 | nbis-gene-32073 |
| Poaceae | Zoysia macrostachya | 1 | Zma_g20920 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG03.680, evm.TU.LG12.1051 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc03g25610 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_3_RagTag.1229 |
| Rhizophoraceae | Carallia pectinifolia | 2 | nbisL1-mrna-17323, nbisL1-mrna-739 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-13208 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-2488 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000019l.498 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00001732 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-6214 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-1931 |
| Salicaceae | Populus euphratica | 1 | populus_peu23333 |
| Solanaceae | Lycium barbarum | 2 | gene-LOC132604079, gene-LOC132627811 |
| Solanaceae | Solanum chilense | 4 | SOLCI001606300, SOLCI002711300, SOLCI003508000 ... |
| Solanaceae | Solanum pennellii | 5 | gene-LOC107006567, gene-LOC107006823, gene-LOC107006916 ... |
| Tamaricaceae | Reaumuria soongarica | 2 | STRG.6656_chr03_-, gene_3210 |
| Tamaricaceae | Tamarix chinensis | 2 | TC04G1814, TC10G2395 |
| Zosteraceae | Zostera marina | 1 | Zosma06g22250.v3.1 |