Basic Information
Locus ID:
Ag5G02616
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
Prp19/Pso4-like
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr5 | 307750549 | 307758823 | + | Ag5G02616 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 5.95 | 57,053.60 Da | 30.60 | 85.62 | -0.27 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd16656 | RING-Ubox_PRP19 | 3 | 54 | 5.57069E-27 | - |
| CDD | cd00200 | WD40 | 226 | 513 | 2.78618E-57 | - |
| Pfam | PF00400 | WD domain, G-beta repeat | 257 | 293 | 7.7E-8 | IPR001680 |
| Pfam | PF08606 | Prp19/Pso4-like | 66 | 131 | 8.4E-29 | IPR013915 |
| Pfam | PF00400 | WD domain, G-beta repeat | 389 | 424 | 6.4E-4 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 474 | 513 | 5.8E-4 | IPR001680 |
| Pfam | PF04564 | U-box domain | 3 | 52 | 2.1E-4 | IPR003613 |
| SUPERFAMILY | SSF50978 | WD40 repeat-like | 223 | 513 | 4.35E-63 | IPR036322 |
| SUPERFAMILY | SSF57850 | RING/U-box | 1 | 53 | 1.59E-12 | - |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 1 | 60 | 8.4E-23 | IPR013083 |
| Gene3D | G3DSA:2.130.10.10 | - | 206 | 515 | 8.8E-88 | IPR015943 |
| SMART | SM00320 | WD40_4 | 300 | 339 | 5.9E-6 | IPR001680 |
| SMART | SM00504 | Ubox_2 | 1 | 66 | 7.4E-19 | IPR003613 |
| SMART | SM00320 | WD40_4 | 342 | 383 | 0.13 | IPR001680 |
| SMART | SM00320 | WD40_4 | 210 | 252 | 1.0 | IPR001680 |
| SMART | SM00320 | WD40_4 | 255 | 294 | 1.1E-9 | IPR001680 |
| SMART | SM00320 | WD40_4 | 386 | 424 | 2.2E-7 | IPR001680 |
| SMART | SM00320 | WD40_4 | 427 | 466 | 3.7 | IPR001680 |
| SMART | SM00320 | WD40_4 | 473 | 514 | 3.5E-4 | IPR001680 |
| ProSiteProfiles | PS51698 | U-box domain profile. | 1 | 70 | 26.096581 | IPR003613 |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 393 | 426 | 8.597424 | - |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 262 | 294 | 12.894674 | - |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 351 | 392 | 9.739832 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 393 | 433 | 10.942887 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 262 | 294 | 15.654854 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 307 | 348 | 9.472486 | IPR001680 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 141 | 166 | - | - |
| Coils | Coil | Coil | 115 | 135 | - | - |
Gene Ontology
Biological Process:
Molecular Function:
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT1G04510.1 | MOS4-associated complex 3A. Encodes MAC3A, 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_017219796.1 | 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 | A0A164T7D5 | Pre-mRNA-processing factor 19 OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_024291 PE=3 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 43.863445 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 27.788073 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 23.163113 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 21.794619 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 24.391226 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 20.149265 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 18.613297 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 9.851575 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 58.025764 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 58.356644 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 60.696163 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 63.717026 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 55.806934 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 49.716305 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 23.374508 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 27.426342 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 30.389896 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 29.323586 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 27.855412 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 22.74769 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 30.436312 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 32.919514 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 36.409653 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 39.109447 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 40.414314 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 39.211918 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 31.84903 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 29.384588 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 35.26564 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 10.523367 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 16.575348 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 15.957973 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 18.795654 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 23.695951 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 14.963422 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 10.432864 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 7.55249 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 8.116978 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 47.920193 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 16.035543 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 10.081359 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 9.046401 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 21.430168 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 45.169853 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 40.82198 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 19.315016 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 35.869198 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 52.657375 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 51.669144 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 48.850414 | 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 |