Basic Information
Locus ID:
Ag4G00872
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
Belongs to the cullin family
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr4 | 85036355 | 85041871 | + | Ag4G00872 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 8.12 | 85,152.58 Da | 44.43 | 84.27 | -0.53 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| Pfam | PF00888 | Cullin family | 29 | 631 | 1.0E-224 | IPR001373 |
| Pfam | PF10557 | Cullin protein neddylation domain | 663 | 725 | 2.5E-25 | IPR019559 |
| SUPERFAMILY | SSF74788 | Cullin repeat-like | 22 | 372 | 1.02E-114 | IPR016159 |
| SUPERFAMILY | SSF46785 | Winged helix DNA-binding domain | 644 | 733 | 8.91E-29 | IPR036390 |
| SUPERFAMILY | SSF75632 | Cullin homology domain | 368 | 641 | 1.44E-99 | IPR036317 |
| Gene3D | G3DSA:3.30.230.130 | Cullin; Chain C, Domain 2 | 490 | 644 | 3.1E-54 | - |
| Gene3D | G3DSA:1.20.1310.10 | Cullin Repeats | 15 | 144 | 5.2E-44 | - |
| Gene3D | G3DSA:1.20.1310.10 | Cullin Repeats | 265 | 372 | 2.8E-34 | - |
| Gene3D | G3DSA:1.20.1310.10 | Cullin Repeats | 145 | 264 | 1.5E-38 | - |
| Gene3D | G3DSA:1.10.10.10 | - | 645 | 733 | 1.6E-32 | IPR036388 |
| Gene3D | G3DSA:1.20.1310.10 | Cullin Repeats | 373 | 484 | 2.0E-44 | - |
| SMART | SM00884 | Cullin_Nedd8_2 | 660 | 727 | 4.8E-36 | IPR019559 |
| SMART | SM00182 | cul_2 | 404 | 551 | 3.2E-70 | IPR016158 |
| ProSiteProfiles | PS50069 | Cullin family profile. | 374 | 602 | 56.638947 | IPR016158 |
| Coils | Coil | Coil | 225 | 245 | - | - |
Gene Ontology
Biological Process:
Molecular Function:
KEGG Pathway
KO Term:
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT1G26830.1 | cullin 3. Cullin, putative, similar to Cullin homolog 3 (CUL-3) SP:Q13618, GI:3639052 from (Homo sapiens); contains Pfam profile PF00888: Cullin family. Interacts with other components of E3 ligase complex suggesting it functions in RUB-modification. Forms complexes with BTB domain proteins forming a novel class of E3-based ubiquitin protein-ligase complexes. Mutant is early flowering and has a reduced sensitivity to far-red light. cul3a/cul3b homozygous/heterozygous plants are embryo lethal. | 0 |
| RefSeq | XP_017242241.1 | PREDICTED: cullin-3A-like [Daucus carota subsp. sativus] | 0 |
| Q9ZVH4 | Cullin-3A OS=Arabidopsis thaliana OX=3702 GN=CUL3A PE=1 SV=1 | 0 | |
| TrEMBL | A0A5B7AMZ5 | Putative cullin-3A-like isoform X1 OS=Davidia involucrata OX=16924 GN=Din_025874 PE=3 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 45.809673 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 38.506008 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 40.069794 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 43.312485 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 39.926079 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 50.926647 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 39.976791 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 55.956451 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 54.868011 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 47.052086 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 58.312504 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 58.723366 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 57.562763 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 47.804798 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 31.366213 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 36.402523 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 32.454056 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 37.783691 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 31.108006 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 39.733322 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 42.948368 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 37.062672 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 35.81641 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 34.715385 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 32.900833 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 40.625275 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 38.775391 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 34.240036 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 38.128887 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 25.22291 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 25.721523 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 21.233635 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 34.971581 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 33.035023 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 32.002861 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 36.33284 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 21.257795 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 27.698717 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 32.811264 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 26.943075 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 27.524799 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 60.980968 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 68.958786 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 66.708809 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 66.661697 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 52.70565 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 67.197937 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 36.496799 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 38.692966 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 31.666298 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 3 | jg5422, jg7103, jg9351 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_3770 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah014090 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_6g154150 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg19276, Sbi_jg43835 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg18077 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00015128 |
| Amaranthaceae | Suaeda glauca | 3 | Sgl31723, Sgl36083, Sgl41391 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000002634, gene:ENSEOMG00000012717 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.6AG0001390, CQ.Regalona.r1.6BG0001510 |
| Anacardiaceae | Pistacia vera | 5 | pistato.v30081410, pistato.v30126250, pistato.v30194820 ... |
| Apiaceae | Apium graveolens | 2 | Ag4G00872, Ag6G00385 |
| Arecaceae | Cocos nucifera | 2 | COCNU_05G007010, COCNU_13G002290 |
| Arecaceae | Phoenix dactylifera | 2 | gene-LOC103719999, gene-LOC103720217 |
| Asparagaceae | Asparagus officinalis | 2 | AsparagusV1_03.1701.V1.1, AsparagusV1_03.86.V1.1 |
| Asteraceae | Flaveria trinervia | 3 | Ftri13G29312, Ftri17G18386, Ftri18G14506 |
| Brassicaceae | Arabidopsis thaliana | 2 | AT1G26830.1, AT1G69670.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10006921m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp1g21950.v2.2 |
| Brassicaceae | Brassica nigra | 2 | BniB03g018850.2N, BniB04g039950.2N |
| Casuarinaceae | Casuarina equisetifolia | 2 | Ceq07G0081, Ceq08G0254 |
| Casuarinaceae | Casuarina glauca | 2 | Cgl07G0072, Cgl08G0206 |
| Cymodoceaceae | Cymodocea nodosa | 2 | gene.Cymno02g03190, gene.Cymno03g11700 |
| Dunaliellaceae | Dunaliella salina | 1 | Dusal.0147s00015.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate05g12140 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 3 | nbisL1-mrna-1990, nbisL1-mrna-2227, nbisL1-mrna-5539 |
| Nitrariaceae | Nitraria sibirica | 2 | evm.TU.LG02.173, evm.TU.LG03.231 |
| Plantaginaceae | Plantago ovata | 2 | Pov_00027174, Pov_00027974 |
| Plumbaginaceae | Limonium bicolor | 1 | Lb2G13311 |
| Poaceae | Echinochloa crus-galli | 6 | AH07.3476, AH08.442, BH07.3296, BH08.450, CH07.3352 ... |
| Poaceae | Eleusine coracana subsp. coracana | 5 | gene-QOZ80_2AG0145610, gene-QOZ80_2BG0201050 ... |
| Poaceae | Hordeum vulgare | 2 | HORVU.MOREX.r3.2HG0205830.1, HORVU.MOREX.r3.6HG0615160.1 |
| Poaceae | Lolium multiflorum | 6 | gene-QYE76_017245, gene-QYE76_024856, gene-QYE76_025333 ... |
| Poaceae | Oryza coarctata | 6 | Oco03G021570, Oco04G022200, Oco07G017240, Oco08G016610 ... |
| Poaceae | Oryza sativa | 3 | LOC_Os02g51180.1, LOC_Os04g55030.1, LOC_Os08g07400.1 |
| Poaceae | Paspalum vaginatum | 2 | gene-BS78_04G278300, gene-BS78_07G058900 |
| Poaceae | Puccinellia tenuiflora | 3 | Pt_Chr0203319, Pt_Chr0300820, Pt_Chr0402379 |
| Poaceae | Sporobolus alterniflorus | 7 | Chr06G002290, Chr09G020130, Chr13G004360, Chr15G003620 ... |
| Poaceae | Thinopyrum elongatum | 2 | Tel2E01G886000, Tel6E01G549100 |
| Poaceae | Triticum dicoccoides | 4 | gene_TRIDC2AG072970, gene_TRIDC2BG079400 ... |
| Poaceae | Triticum aestivum | 6 | TraesCS2A02G520700.1, TraesCS2B02G550000.1 ... |
| Poaceae | Zea mays | 3 | Zm00001eb172040_P001, Zm00001eb254590_P001 ... |
| Poaceae | Zoysia japonica | 2 | nbis-gene-21847, nbis-gene-8720 |
| Poaceae | Zoysia macrostachya | 5 | Zma_g14422, Zma_g17138, Zma_g22542, Zma_g22543, Zma_g23679 |
| Portulacaceae | Portulaca oleracea | 4 | evm.TU.LG03.262, evm.TU.LG12.1442, evm.TU.LG13.355 ... |
| Posidoniaceae | Posidonia oceanica | 2 | gene.Posoc02g28620, gene.Posoc04g13550 |
| Rhizophoraceae | Bruguiera sexangula | 2 | evm.TU.Scaffold_15_RagTag.640, evm.TU.Scaffold_17_RagTag.361 |
| Rhizophoraceae | Carallia pectinifolia | 2 | nbisL1-mrna-22966, nbisL1-mrna-26822 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-20687 |
| Rhizophoraceae | Ceriops zippeliana | 2 | nbisL1-mrna-14884, nbisL1-mrna-15736 |
| Rhizophoraceae | Kandelia candel | 2 | evm.TU.utg000001l.333, evm.TU.utg000013l.249 |
| Rhizophoraceae | Kandelia obovata | 2 | Maker00002473, Maker00006655 |
| Rhizophoraceae | Rhizophora apiculata | 2 | nbisL1-mrna-11330, nbisL1-mrna-7159 |
| Rhizophoraceae | Rhizophora mangle | 2 | nbisL1-mrna-15745, nbisL1-mrna-17855 |
| Salicaceae | Populus euphratica | 2 | populus_peu07339, populus_peu21335 |
| Solanaceae | Lycium barbarum | 3 | gene-LOC132623289, gene-LOC132626094, gene-LOC132626097 |
| Solanaceae | Solanum chilense | 2 | SOLCI001193500, SOLCI003301000 |
| Solanaceae | Solanum pennellii | 2 | gene-LOC107008063, gene-LOC107011441 |
| Tamaricaceae | Reaumuria soongarica | 2 | STRG.14063_chr05_+, STRG.29297_chr10_+ |
| Tamaricaceae | Tamarix chinensis | 2 | TC01G3295, TC03G0606 |
| Zosteraceae | Zostera marina | 2 | Zosma01g04920.v3.1, Zosma06g17140.v3.1 |