Basic Information
Locus ID:
Ag4G02765
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
U-box domain-containing protein
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr4 | 309806538 | 309812082 | + | Ag4G02765 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 6.92 | 48,500.22 Da | 38.10 | 80.38 | -0.26 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd00200 | WD40 | 152 | 428 | 3.6693E-44 | - |
| CDD | cd16656 | RING-Ubox_PRP19 | 4 | 54 | 8.58308E-21 | - |
| Pfam | PF00400 | WD domain, G-beta repeat | 318 | 349 | 0.2 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 231 | 265 | 0.14 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 183 | 219 | 3.7E-7 | IPR001680 |
| SUPERFAMILY | SSF57850 | RING/U-box | 2 | 54 | 2.21E-12 | - |
| SUPERFAMILY | SSF50978 | WD40 repeat-like | 145 | 432 | 1.62E-50 | IPR036322 |
| Gene3D | G3DSA:2.130.10.10 | - | 135 | 437 | 2.1E-67 | IPR015943 |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 2 | 60 | 8.4E-18 | IPR013083 |
| SMART | SM00320 | WD40_4 | 352 | 390 | 26.0 | IPR001680 |
| SMART | SM00320 | WD40_4 | 181 | 220 | 4.3E-9 | IPR001680 |
| SMART | SM00320 | WD40_4 | 311 | 349 | 1.6E-6 | IPR001680 |
| SMART | SM00320 | WD40_4 | 136 | 178 | 9.3 | IPR001680 |
| SMART | SM00320 | WD40_4 | 228 | 265 | 0.04 | IPR001680 |
| SMART | SM00504 | Ubox_2 | 1 | 63 | 5.8E-11 | IPR003613 |
| SMART | SM00320 | WD40_4 | 268 | 308 | 0.53 | IPR001680 |
| SMART | SM00320 | WD40_4 | 393 | 437 | 76.0 | IPR001680 |
| ProSiteProfiles | PS51698 | U-box domain profile. | 1 | 80 | 13.447229 | IPR003613 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 188 | 220 | 15.420926 | IPR001680 |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 188 | 220 | 12.710129 | - |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 318 | 358 | 9.271977 | IPR001680 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 70 | 96 | - | - |
Gene Ontology
Biological Process:
Molecular Function:
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT2G33340.1 | MOS4-associated complex 3B. Encodes MAC3B, a U-box proteins with homology to the yeast and human E3 ubiquitin ligase Prp19. Associated with the MOS4-Associated Complex (MAC). Involved in plant innate immunity. | 0 |
| RefSeq | XP_017227800.1 | PREDICTED: pre-mRNA-processing factor 19-like [Daucus carota subsp. sativus] | 0 |
| Q9AV81 | Pre-mRNA-processing factor 19 OS=Oryza sativa subsp. japonica OX=39947 GN=PRP19 PE=2 SV=1 | 0 | |
| TrEMBL | A0A175YAX1 | Pre-mRNA-processing factor 19 OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_031698 PE=3 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 2.07834 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 4.708668 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 8.362604 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 8.874732 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 10.666492 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 12.530113 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 11.169748 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 7.720757 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 4.860193 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 4.89385 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 5.07468 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 3.831014 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 3.961892 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 3.841134 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 3.704655 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 2.813348 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 7.76133 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 5.866982 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 2.531663 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 3.916067 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 5.208766 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 4.04977 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 3.742682 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 2.997227 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 2.44439 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 10.999264 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 12.447169 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 21.016289 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 3.396399 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 5.168397 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 10.38398 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 6.288801 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 22.728037 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 10.399477 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 20.607309 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 15.035078 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 17.860226 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 16.123289 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 5.353234 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 3.583525 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 32.784485 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 42.640541 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 6.944326 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 0.787689 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 18.913155 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 32.828815 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 10.43042 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 6.074015 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 9.994864 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 8.48903 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 2 | jg12760, jg27737 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_2995 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah019168 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_3g048280 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg37942, Sbi_jg6081 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg28229 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00006161 |
| Amaranthaceae | Suaeda glauca | 3 | Sgl00906, Sgl05860, Sgl05984 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000000791, gene:ENSEOMG00000030607 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.3AG0000870, CQ.Regalona.r1.3BG0000940 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30239760 |
| Apiaceae | Apium graveolens | 4 | Ag4G02764, Ag4G02765, Ag5G02616, Ag8G01454 |
| Arecaceae | Cocos nucifera | 2 | COCNU_07G001300, COCNU_10G000960 |
| Arecaceae | Phoenix dactylifera | 3 | gene-LOC103703895, gene-LOC103715421, gene-LOC120110797 |
| Asparagaceae | Asparagus officinalis | 2 | AsparagusV1_04.200.V1.1, AsparagusV1_10.1891.V1.1 |
| Asteraceae | Flaveria trinervia | 1 | Ftri12G18287 |
| Brassicaceae | Arabidopsis thaliana | 2 | AT1G04510.1, AT2G33340.1 |
| Brassicaceae | Eutrema salsugineum | 2 | Thhalv10007366m.g.v1.0, Thhalv10016510m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 2 | Sp1g03340.v2.2, Sp4g15650.v2.2 |
| Brassicaceae | Brassica nigra | 3 | BniB01g010770.2N, BniB06g022610.2N, BniB06g046370.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq07G1252 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl07G1328 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno14g02920 |
| Dunaliellaceae | Dunaliella salina | 2 | Dusal.0061s00009.v1.0, Dusal.0061s00010.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate05g17670 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG11.741 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00025396 |
| Plumbaginaceae | Limonium bicolor | 1 | Lb2G11751 |
| Poaceae | Echinochloa crus-galli | 3 | AH01.1825, BH01.2137, CH01.2237 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_2AG0127280, gene-QOZ80_2BG0182760 |
| Poaceae | Hordeum vulgare | 2 | HORVU.MOREX.r3.1HG0041060.1, HORVU.MOREX.r3.4HG0411750.1 |
| Poaceae | Lolium multiflorum | 4 | gene-QYE76_007654, gene-QYE76_011390, gene-QYE76_070891 ... |
| Poaceae | Oryza coarctata | 2 | Oco19G005680, Oco20G005590 |
| Poaceae | Oryza sativa | 1 | LOC_Os10g32880.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_01G210700 |
| Poaceae | Puccinellia tenuiflora | 3 | Pt_Chr0100151, Pt_Chr0100267, Pt_Chr0502534 |
| Poaceae | Sporobolus alterniflorus | 5 | Chr06G013180, Chr09G010580, Chr0G025950, Chr0G029600 ... |
| Poaceae | Thinopyrum elongatum | 2 | Tel1E01G276300, Tel4E01G558600 |
| Poaceae | Triticum dicoccoides | 4 | gene_TRIDC1AG022530, gene_TRIDC1BG027250 ... |
| Poaceae | Triticum aestivum | 6 | TraesCS1A02G148000.1, TraesCS1B02G165900.2 ... |
| Poaceae | Zea mays | 2 | Zm00001eb046370_P001, Zm00001eb222190_P001 |
| Poaceae | Zoysia japonica | 1 | nbis-gene-19254 |
| Poaceae | Zoysia macrostachya | 2 | Zma_g13355, Zma_g16168 |
| Portulacaceae | Portulaca oleracea | 1 | evm.TU.LG11.1383 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc06g01650 |
| Rhizophoraceae | Bruguiera sexangula | 2 | evm.TU.Scaffold_3_RagTag.1308, evm.TU.Scaffold_6_RagTag.909 |
| Rhizophoraceae | Carallia pectinifolia | 2 | nbisL1-mrna-15770, nbisL1-mrna-1624 |
| Rhizophoraceae | Ceriops tagal | 2 | nbisL1-mrna-16149, nbisL1-mrna-6009 |
| Rhizophoraceae | Ceriops zippeliana | 2 | nbisL1-mrna-2562, nbisL1-mrna-778 |
| Rhizophoraceae | Kandelia candel | 2 | evm.TU.utg000011l.567, evm.TU.utg000019l.452 |
| Rhizophoraceae | Kandelia obovata | 2 | Maker00002182, Maker00007127 |
| Rhizophoraceae | Rhizophora apiculata | 2 | nbisL1-mrna-15196, nbisL1-mrna-6254 |
| Rhizophoraceae | Rhizophora mangle | 2 | nbisL1-mrna-2002, nbisL1-mrna-4305 |
| Salicaceae | Populus euphratica | 2 | populus_peu07567, populus_peu21598 |
| Solanaceae | Lycium barbarum | 2 | gene-LOC132604335, gene-LOC132609225 |
| Solanaceae | Solanum chilense | 1 | SOLCI001763500 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107031322 |
| Tamaricaceae | Reaumuria soongarica | 2 | gene_11613, gene_5283 |
| Tamaricaceae | Tamarix chinensis | 1 | TC06G1462 |
| Zosteraceae | Zostera marina | 1 | Zosma01g38330.v3.1 |