Basic Information
Locus ID:
Ag11G03585
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Short Name:
UBC23
Description:
Belongs to the ubiquitin-conjugating enzyme family
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr11 | 54778882 | 54788637 | + | Ag11G03585 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 4.57 | 125,228.74 Da | 35.82 | 74.79 | -0.56 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd00195 | UBCc | 884 | 1034 | 1.38599E-31 | IPR000608 |
| Pfam | PF00179 | Ubiquitin-conjugating enzyme | 886 | 1029 | 1.4E-22 | IPR000608 |
| SUPERFAMILY | SSF54495 | UBC-like | 865 | 1048 | 2.15E-39 | IPR016135 |
| Gene3D | G3DSA:3.10.110.10 | Ubiquitin Conjugating Enzyme | 842 | 1112 | 1.7E-78 | IPR016135 |
| SMART | SM00212 | ubc_7 | 884 | 1041 | 1.3E-22 | - |
| ProSiteProfiles | PS50127 | Ubiquitin-conjugating (UBC) core domain profile. | 881 | 1041 | 34.34716 | IPR000608 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 76 | 112 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 718 | 734 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 60 | 123 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 15 | 29 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 44 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 709 | 741 | - | - |
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT2G16920.1 | ubiquitin-conjugating enzyme 23. | 0 |
| RefSeq | XP_017258352.1 | PREDICTED: probable ubiquitin-conjugating enzyme E2 23 isoform X2 [Daucus carota subsp. sativus] | 0 |
| Q9ZVX1 | Probable ubiquitin-conjugating enzyme E2 23 OS=Arabidopsis thaliana OX=3702 GN=UBC23 PE=1 SV=1 | 0 | |
| TrEMBL | A0A161ZQ36 | UBC core domain-containing protein OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_022945 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 16.214722 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 14.258307 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 13.705503 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 15.896045 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 15.239349 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 15.502342 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 14.330088 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 16.765253 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 15.33542 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 16.111752 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 16.648285 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 17.724577 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 17.282375 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 16.098717 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 6.14231 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 8.699412 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 6.628518 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 10.614542 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 6.421797 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 10.572855 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 11.439494 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 9.064223 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 9.996642 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 8.835914 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 8.994804 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 12.736803 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 8.082958 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 9.819336 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 9.810154 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 2.302798 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 3.847301 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 2.983519 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 6.241282 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 5.064908 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 6.654334 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 3.347021 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 2.283169 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 2.610051 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 8.209354 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 7.167373 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 5.609771 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 10.829188 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 13.628451 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 14.200584 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 11.64532 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 11.618961 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 12.68799 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 10.401047 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 11.660636 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 10.09195 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 5 | jg26129, jg28888, jg28889, jg30378, jg882 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_21914 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah009645 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_9g213850 |
| Amaranthaceae | Salicornia bigelovii | 1 | Sbi_jg12251 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg21494 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00020458 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl55480, Sgl61327 |
| Amaranthaceae | Chenopodium album | 5 | gene:ENSEOMG00000014525, gene:ENSEOMG00000039134 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.7BG0002690, CQ.Regalona.r1.9AG0021980 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30249090 |
| Apiaceae | Apium graveolens | 1 | Ag11G03585 |
| Arecaceae | Cocos nucifera | 1 | COCNU_04G003260 |
| Arecaceae | Phoenix dactylifera | 1 | gene-LOC103718297 |
| Asparagaceae | Asparagus officinalis | 1 | AsparagusV1_07.2549.V1.1 |
| Asteraceae | Flaveria trinervia | 1 | Ftri13G28072 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT2G16920.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10022524m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp3g30200.v2.2 |
| Brassicaceae | Brassica nigra | 1 | BniB02g013060.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq07G1734 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl07G1875 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno10g09330 |
| Hydrocharitaceae | Thalassia testudinum | 2 | gene.Thate02g00150, gene.Thate07g01080 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 1 | nbisL1-mrna-5646 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG08.331 |
| Plantaginaceae | Plantago ovata | 2 | Pov_00001683, Pov_00007341 |
| Plumbaginaceae | Limonium bicolor | 1 | Lb6G30063 |
| Poaceae | Echinochloa crus-galli | 3 | AH02.1255, BH02.837, CH02.955 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_1AG0007990, gene-QOZ80_1BG0056770 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.3HG0222770.1 |
| Poaceae | Lolium multiflorum | 1 | gene-QYE76_049135 |
| Poaceae | Oryza coarctata | 2 | Oco01G000980, Oco02G001010 |
| Poaceae | Oryza sativa | 1 | LOC_Os01g03520.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_02G049000 |
| Poaceae | Puccinellia tenuiflora | 2 | Pt_Chr0205512, Pt_Chr0206977 |
| Poaceae | Sporobolus alterniflorus | 4 | Chr02G024510, Chr03G003370, Chr05G002420, Chr08G001640 |
| Poaceae | Thinopyrum elongatum | 1 | Tel3E01G060800 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC3AG005370, gene_TRIDC3BG004990 |
| Poaceae | Triticum aestivum | 3 | TraesCS3A02G047700.3, TraesCS3B02G034500.5 ... |
| Poaceae | Zea mays | 2 | Zm00001eb125670_P001, Zm00001eb334990_P002 |
| Poaceae | Zoysia japonica | 2 | nbis-gene-32258, nbis-gene-7092 |
| Poaceae | Zoysia macrostachya | 1 | Zma_g7525 |
| Portulacaceae | Portulaca oleracea | 4 | evm.TU.LG02.1802, evm.TU.LG08.1109, evm.TU.LG09.133 ... |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc06g09010 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_1_RagTag.2333 |
| Rhizophoraceae | Carallia pectinifolia | 1 | nbisL1-mrna-6067 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-7923 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-3231 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000016l.52 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00016498 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-4610 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-22470 |
| Salicaceae | Populus euphratica | 2 | populus_peu08691, populus_peu36660 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132599340 |
| Solanaceae | Solanum chilense | 1 | SOLCI006584600 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107007981 |
| Tamaricaceae | Reaumuria soongarica | 1 | STRG.11769_chr02_+ |
| Tamaricaceae | Tamarix chinensis | 1 | TC10G0150 |
| Zosteraceae | Zostera marina | 2 | Zosma01g22290.v3.1, Zosma1314g00030.v3.1 |