Basic Information
Locus ID:
Ag4G02709
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 |
|---|---|---|---|---|
| chr4 | 308500194 | 308506463 | + | Ag4G02709 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 8.20 | 51,369.62 Da | 39.19 | 80.65 | -0.35 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| Pfam | PF00400 | WD domain, G-beta repeat | 159 | 195 | 5.9E-6 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 247 | 281 | 0.13 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 204 | 239 | 0.25 | IPR001680 |
| SUPERFAMILY | SSF50978 | WD40 repeat-like | 155 | 460 | 2.0E-51 | IPR036322 |
| Gene3D | G3DSA:2.130.10.10 | - | 140 | 463 | 4.2E-67 | IPR015943 |
| SMART | SM00320 | WD40_4 | 284 | 330 | 53.0 | IPR001680 |
| SMART | SM00320 | WD40_4 | 155 | 195 | 2.3E-8 | IPR001680 |
| SMART | SM00320 | WD40_4 | 242 | 281 | 0.0024 | IPR001680 |
| SMART | SM00320 | WD40_4 | 423 | 463 | 0.94 | IPR001680 |
| SMART | SM00320 | WD40_4 | 381 | 420 | 0.37 | IPR001680 |
| SMART | SM00320 | WD40_4 | 200 | 239 | 7.1E-4 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 248 | 290 | 10.508451 | IPR001680 |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 162 | 195 | 9.915599 | - |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 162 | 195 | 11.878597 | IPR001680 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 37 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 99 | 119 | - | - |
Gene Ontology
Molecular Function:
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT5G54520.1 | Transducin/WD40 repeat-like superfamily protein. | 0 |
| RefSeq | XP_017238344.1 | PREDICTED: WD repeat-containing protein 25 [Daucus carota subsp. sativus] | 0 |
| Q64LD2 | WD repeat-containing protein 25 OS=Homo sapiens OX=9606 GN=WDR25 PE=1 SV=3 | 0 | |
| TrEMBL | A0A165ZER5 | WD_REPEATS_REGION domain-containing protein OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_008699 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 15.762967 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 8.61308 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 12.056096 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 11.725468 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 10.640924 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 17.425541 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 12.855107 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 9.909203 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 4.346716 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 4.284558 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 4.32814 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 4.332342 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 4.812354 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 3.416474 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 7.550974 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 8.254989 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 5.910141 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 7.533073 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 7.154102 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 5.473381 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 9.326902 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 7.164755 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 5.854792 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 12.300802 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 8.565126 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 5.999909 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 5.11504 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 5.039971 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 4.740437 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 5.974389 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 8.547711 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 5.060793 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 13.854428 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 9.047847 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 19.241625 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 9.042205 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 6.51617 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 7.732754 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 5.210333 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 4.701901 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 3.767488 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 6.785213 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 7.390426 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 22.762878 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 22.278234 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 7.220885 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 14.666192 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 1.673048 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 2.512433 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 1.962263 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 2 | jg21455, jg21456 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_7386 |
| Amaranthaceae | Atriplex hortensis | 2 | Ah008421, Ah008422 |
| Amaranthaceae | Salicornia bigelovii | 3 | Sbi_jg18814, Sbi_jg37242, Sbi_jg37245 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg5065 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00007003 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl22945, Sgl28065 |
| Amaranthaceae | Chenopodium album | 2 | gene:ENSEOMG00000007803, gene:ENSEOMG00000042705 |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.4AG0020960, CQ.Regalona.r1.4BG0021450 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30159840 |
| Apiaceae | Apium graveolens | 3 | Ag4G00888, Ag4G02699, Ag4G02709 |
| Arecaceae | Cocos nucifera | 1 | COCNU_07G002250 |
| Arecaceae | Phoenix dactylifera | 1 | gene-LOC103706162 |
| Asparagaceae | Asparagus officinalis | 1 | AsparagusV1_04.2153.V1.1 |
| Asteraceae | Flaveria trinervia | 1 | Ftri16G00410 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT5G54520.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10013494m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp6g16490.v2.2 |
| Brassicaceae | Brassica nigra | 1 | BniB08g015890.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq01G1197 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl01G1342 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno11g10880 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate05g02310 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 1 | nbisL1-mrna-9141 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG05.1730 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00008982 |
| Plumbaginaceae | Limonium bicolor | 2 | Lb1G03279, Lb1G03280 |
| Poaceae | Echinochloa crus-galli | 4 | AH05.2174, AH05.2175, BH05.2333, CH05.2388 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_4AG0311820, gene-QOZ80_4BG0343130 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.2HG0105610.1 |
| Poaceae | Lolium multiflorum | 1 | gene-QYE76_038383 |
| Poaceae | Oryza coarctata | 1 | Oco04G009250 |
| Poaceae | Oryza sativa | 1 | LOC_Os02g21490.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_08G055700 |
| Poaceae | Puccinellia tenuiflora | 2 | Pt_Chr0305668, Pt_Ctg00124 |
| Poaceae | Sporobolus alterniflorus | 1 | Chr30G014050 |
| Poaceae | Thinopyrum elongatum | 1 | Tel2E01G140400 |
| Poaceae | Triticum dicoccoides | 3 | gene_TRIDC2AG006810, gene_TRIDC2AG006830 ... |
| Poaceae | Triticum aestivum | 3 | TraesCS2A02G061500.1, TraesCS2B02G074700.1 ... |
| Poaceae | Zea mays | 2 | Zm00001eb118470_P001, Zm00001eb164250_P001 |
| Poaceae | Zoysia japonica | 1 | nbis-gene-8210 |
| Poaceae | Zoysia macrostachya | 1 | Zma_g21000 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG02.1694, evm.TU.LG09.221 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc08g05770 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_9_RagTag.265 |
| Rhizophoraceae | Carallia pectinifolia | 1 | nbisL1-mrna-21991 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-3222 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-7225 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000003l.386 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00009604 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-6803 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-12611 |
| Salicaceae | Populus euphratica | 2 | populus_peu00409, populus_peu00410 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132613585 |
| Solanaceae | Solanum chilense | 1 | SOLCI002061300 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107015944 |
| Tamaricaceae | Reaumuria soongarica | 1 | gene_13194 |
| Tamaricaceae | Tamarix chinensis | 1 | TC05G2829 |
| Zosteraceae | Zostera marina | 1 | Zosma15g00170.v3.1 |