Basic Information
Locus ID:
Ag11G04270
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
DDB1- and CUL4-associated factor 8-like
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr11 | 162383173 | 162387115 | + | Ag11G04270 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 5.85 | 53,445.31 Da | 49.35 | 75.81 | -0.46 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| Pfam | PF00400 | WD domain, G-beta repeat | 303 | 338 | 0.03 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 44 | 77 | 6.5E-7 | IPR001680 |
| SUPERFAMILY | SSF50978 | WD40 repeat-like | 38 | 379 | 8.12E-49 | IPR036322 |
| Gene3D | G3DSA:2.130.10.10 | - | 31 | 381 | 3.6E-47 | IPR015943 |
| SMART | SM00320 | WD40_4 | 127 | 167 | 0.58 | IPR001680 |
| SMART | SM00320 | WD40_4 | 296 | 338 | 0.44 | IPR001680 |
| SMART | SM00320 | WD40_4 | 341 | 380 | 0.53 | IPR001680 |
| SMART | SM00320 | WD40_4 | 80 | 122 | 16.0 | IPR001680 |
| SMART | SM00320 | WD40_4 | 38 | 77 | 1.9E-7 | IPR001680 |
| SMART | SM00320 | WD40_4 | 239 | 277 | 1.8 | IPR001680 |
| SMART | SM00320 | WD40_4 | 186 | 221 | 56.0 | IPR001680 |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 45 | 77 | 11.787407 | - |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 45 | 77 | 14.251289 | IPR001680 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 447 | 477 | - | - |
Gene Ontology
Molecular Function:
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT3G45620.1 | Transducin/WD40 repeat-like superfamily protein. This gene is predicted to encode a protein with a DWD motif. It can bind to DDB1a in Y2H assays, and DDB1b in co-IP assays, and may be involved in the formation of a CUL4-based E3 ubiquitin ligase | 0 |
| RefSeq | XP_017231273.1 | PREDICTED: DDB1- and CUL4-associated factor 8 [Daucus carota subsp. sativus] | 0 |
| Q8N7N5 | DDB1- and CUL4-associated factor 8 OS=Mus musculus OX=10090 GN=Dcaf8 PE=1 SV=1 | 0 | |
| TrEMBL | A0A166DFJ5 | DDB1-and CUL4-associated factor 8 OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_006033 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 14.166734 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 13.823092 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 14.765407 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 14.543009 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 14.441127 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 23.02108 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 21.329508 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 11.128934 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 16.502777 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 16.643641 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 19.704647 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 14.201448 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 13.141842 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 10.464732 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 7.997982 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 12.262257 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 11.318594 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 9.681106 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 5.500281 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 6.961524 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 8.793715 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 11.981061 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 11.485461 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 10.669885 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 12.203833 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 6.738265 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 7.108235 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 8.182727 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 11.904236 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 0.550336 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 0.533832 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 0.497289 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 7.996898 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 7.94401 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 5.575123 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 2.1717 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 1.50344 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 1.340814 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 2.281988 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 1.404966 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 1.866431 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 3.585184 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 0.133576 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 7.034551 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 10.25215 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 3.51282 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 8.992764 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 7.27302 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 13.724187 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 11.067418 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 5 | jg26124, jg28907, jg35840, jg37933, jg859 |
| Aizoaceae | Mesembryanthemum crystallinum | 2 | gene_20905, gene_26705 |
| Amaranthaceae | Atriplex hortensis | 2 | Ah009616, Ah037680 |
| Amaranthaceae | Beta vulgaris | 2 | BVRB_9g207400, BVRB_9g213500 |
| Amaranthaceae | Salicornia bigelovii | 4 | Sbi_jg12282, Sbi_jg2447, Sbi_jg47268, Sbi_jg59882 |
| Amaranthaceae | Salicornia europaea | 2 | Seu_jg21536, Seu_jg24141 |
| Amaranthaceae | Suaeda aralocaspica | 2 | GOSA_00018846, GOSA_00022943 |
| Amaranthaceae | Suaeda glauca | 3 | Sgl55514, Sgl60733, Sgl67544 |
| Amaranthaceae | Chenopodium album | 4 | gene:ENSEOMG00000019216, gene:ENSEOMG00000037231 ... |
| Amaranthaceae | Chenopodium quinoa | 3 | CQ.Regalona.r1.7AG0017760, CQ.Regalona.r1.7BG0002450 ... |
| Anacardiaceae | Pistacia vera | 3 | pistato.v30059250, pistato.v30109220, pistato.v30109830 |
| Apiaceae | Apium graveolens | 2 | Ag11G04270, Ag9G00848 |
| Arecaceae | Cocos nucifera | 2 | COCNU_04G014470, COCNU_09G004800 |
| Arecaceae | Phoenix dactylifera | 3 | gene-LOC103708682, gene-LOC103708870, gene-LOC103718921 |
| Asparagaceae | Asparagus officinalis | 3 | AsparagusV1_01.1130.V1.1, AsparagusV1_07.377.V1.1 ... |
| Asteraceae | Flaveria trinervia | 4 | Ftri13G14517, Ftri16G27063, Ftri2G34121, Ftri4G27807 |
| Brassicaceae | Arabidopsis thaliana | 3 | AT3G45620.2, AT4G35140.1, AT4G38480.1 |
| Brassicaceae | Eutrema salsugineum | 3 | Thhalv10002508m.g.v1.0, Thhalv10025111m.g.v1.0 ... |
| Brassicaceae | Schrenkiella parvula | 3 | Sp5g15870.v2.2, Sp7g32910.v2.2, Sp7g37300.v2.2 |
| Brassicaceae | Brassica nigra | 3 | BniB03g015790.2N, BniB05g003220.2N, BniB08g058500.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq07G1771 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl07G1918 |
| Cymodoceaceae | Cymodocea nodosa | 2 | gene.Cymno04g16200, gene.Cymno10g08000 |
| Dunaliellaceae | Dunaliella salina | 1 | Dusal.0027s00039.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 2 | gene.Thate06g01930, gene.Thate08g17540 |
| Nitrariaceae | Nitraria sibirica | 2 | evm.TU.LG08.354, evm.TU.LG09.977 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00001719 |
| Plumbaginaceae | Limonium bicolor | 6 | Lb3G17683, Lb4G26257, Lb5G26851, Lb6G31692, Lb6G32419 ... |
| Poaceae | Echinochloa crus-galli | 10 | AH01.3035, AH01.4016, AH06.3008, BH01.3374, BH01.4441 ... |
| Poaceae | Eleusine coracana subsp. coracana | 6 | gene-QOZ80_2AG0115460, gene-QOZ80_2BG0169250 ... |
| Poaceae | Hordeum vulgare | 3 | HORVU.MOREX.r3.1HG0055030.1, HORVU.MOREX.r3.4HG0385670.2 ... |
| Poaceae | Lolium multiflorum | 6 | gene-QYE76_012389, gene-QYE76_012419, gene-QYE76_036904 ... |
| Poaceae | Oryza coarctata | 4 | Oco05G010380, Oco06G010590, Oco19G009280, Oco20G009170 |
| Poaceae | Oryza sativa | 3 | LOC_Os03g17780.1, LOC_Os06g50880.1, LOC_Os10g39760.1 |
| Poaceae | Paspalum vaginatum | 4 | gene-BS78_01G297500, gene-BS78_01G392600 ... |
| Poaceae | Puccinellia tenuiflora | 5 | Pt_Chr0105065, Pt_Chr0106294, Pt_Chr0401784, Pt_Chr0401807 ... |
| Poaceae | Sporobolus alterniflorus | 10 | Chr04G008460, Chr05G000330, Chr06G028460, Chr07G003170 ... |
| Poaceae | Thinopyrum elongatum | 4 | Tel1E01G351600, Tel4E01G350100, Tel7E01G946900 ... |
| Poaceae | Triticum dicoccoides | 7 | gene_TRIDC1AG030860, gene_TRIDC1BG036340 ... |
| Poaceae | Triticum aestivum | 11 | TraesCS1A02G204200.2, TraesCS1B02G217800.1 ... |
| Poaceae | Zea mays | 4 | Zm00001eb013140_P003, Zm00001eb272160_P001 ... |
| Poaceae | Zoysia japonica | 3 | nbis-gene-3649, nbis-gene-40802, nbis-gene-47026 |
| Poaceae | Zoysia macrostachya | 3 | Zma_g15619, Zma_g33429, Zma_g3857 |
| Portulacaceae | Portulaca oleracea | 5 | evm.TU.LG06.996, evm.TU.LG08.1097, evm.TU.LG11.262 ... |
| Posidoniaceae | Posidonia oceanica | 2 | gene.Posoc01g36040, gene.Posoc06g14560 |
| Rhizophoraceae | Bruguiera sexangula | 2 | evm.TU.Scaffold_1_RagTag.2349, evm.TU.Scaffold_2_RagTag.59 |
| Rhizophoraceae | Carallia pectinifolia | 2 | nbisL1-mrna-5146, nbisL1-mrna-5219 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-7910 |
| Rhizophoraceae | Ceriops zippeliana | 2 | nbisL1-mrna-3220, nbisL1-mrna-9323 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000016l.41 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00016401 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-4598 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-22487 |
| Salicaceae | Populus euphratica | 1 | populus_peu08666 |
| Solanaceae | Lycium barbarum | 3 | gene-LOC132599357, gene-LOC132600810, gene-LOC132606660 |
| Solanaceae | Solanum chilense | 2 | SOLCI000015800, SOLCI001120600 |
| Solanaceae | Solanum pennellii | 2 | gene-LOC107004896, gene-LOC107008363 |
| Tamaricaceae | Reaumuria soongarica | 2 | gene_2167, gene_8855 |
| Tamaricaceae | Tamarix chinensis | 1 | TC03G0037 |
| Zosteraceae | Zostera marina | 1 | Zosma01g18630.v3.1 |