Basic Information
Locus ID:
Ag5G00424
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
RING-type E3 ubiquitin transferase
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr5 | 13316911 | 13319518 | - | Ag5G00424 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 6.04 | 48,982.80 Da | 39.11 | 112.03 | 0.19 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd16664 | RING-Ubox_PUB | 69 | 111 | 1.2806E-24 | - |
| Pfam | PF04564 | U-box domain | 65 | 135 | 1.1E-14 | IPR003613 |
| SUPERFAMILY | SSF57850 | RING/U-box | 59 | 135 | 4.14E-25 | - |
| SUPERFAMILY | SSF48371 | ARM repeat | 235 | 436 | 1.03E-18 | IPR016024 |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 64 | 138 | 1.5E-23 | IPR013083 |
| Gene3D | G3DSA:1.25.10.10 | - | 139 | 442 | 1.7E-20 | IPR011989 |
| SMART | SM00504 | Ubox_2 | 68 | 131 | 1.5E-28 | IPR003613 |
| ProSiteProfiles | PS51698 | U-box domain profile. | 64 | 138 | 33.995789 | IPR003613 |
Gene Ontology
Biological Process:
Molecular Function:
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT3G49810.1 | ARM repeat superfamily protein. | 0 |
| RefSeq | XP_017215136.1 | PREDICTED: U-box domain-containing protein 30-like [Daucus carota subsp. sativus] | 0 |
| Q058P4 | U-box domain-containing protein 30 OS=Arabidopsis thaliana OX=3702 GN=PUB30 PE=1 SV=1 | 0 | |
| TrEMBL | A0A161ZMX5 | RING-type E3 ubiquitin transferase OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_025817 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 9.779438 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 9.295609 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 17.611706 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 14.967224 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 18.37015 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 26.340239 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 21.025684 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 35.063057 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 19.624546 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 19.287889 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 25.016279 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 22.233879 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 17.271221 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 13.066423 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 7.473528 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 6.790406 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 5.558446 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 5.891065 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 4.189852 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 7.152645 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 4.491123 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 5.623362 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 4.781305 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 3.770577 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 5.028366 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 4.947233 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 5.185637 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 3.786073 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 4.44276 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 2.852773 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 2.606044 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 2.326227 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 5.536642 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 6.869905 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 5.132268 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 2.318621 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 1.52618 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 2.445115 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 13.242951 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 5.650527 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 1.85126 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 5.061461 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 10.710822 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 28.558025 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 22.820366 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 4.278314 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 21.417763 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 12.682009 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 10.649544 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 13.935632 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 2 | jg20871, jg22378 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_6020 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah036766 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_1g014790 |
| Amaranthaceae | Salicornia bigelovii | 3 | Sbi_jg13957, Sbi_jg39643, Sbi_jg54689 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg14676 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00013207 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl12549, Sgl17822 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000017884, gene:ENSEOMG00000033611 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.1AG0020860, CQ.Regalona.r1.1BG0007280 |
| Apiaceae | Apium graveolens | 3 | Ag3G00109, Ag4G02861, Ag5G00424 |
| Arecaceae | Cocos nucifera | 3 | COCNU_05G000470, scaffold006950G000010 ... |
| Arecaceae | Phoenix dactylifera | 2 | gene-LOC103698683, gene-LOC103707510 |
| Asparagaceae | Asparagus officinalis | 2 | AsparagusV1_03.2309.V1.1, AsparagusV1_03.795.V1.1 |
| Asteraceae | Flaveria trinervia | 5 | Ftri17G12756, Ftri18G00067, Ftri1G19144, Ftri1G31986 ... |
| Brassicaceae | Arabidopsis thaliana | 2 | AT3G49810.1, AT5G65920.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10010374m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp5g12280.v2.2 |
| Brassicaceae | Brassica nigra | 2 | BniB05g047780.2N, BniB07g043470.2N |
| Casuarinaceae | Casuarina equisetifolia | 2 | Ceq03G1268, Ceq05G1454 |
| Casuarinaceae | Casuarina glauca | 2 | Cgl03G1375, Cgl05G1455 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno06g00610 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate02g30910 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 3 | nbisL1-mrna-10084, nbisL1-mrna-10113, nbisL1-mrna-6671 |
| Nitrariaceae | Nitraria sibirica | 2 | evm.TU.LG02.2585, evm.TU.LG06.316 |
| Plantaginaceae | Plantago ovata | 2 | Pov_00012961, Pov_00038609 |
| Poaceae | Echinochloa crus-galli | 3 | AH01.4453, CH01.5063, Contig192.93 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_3AG0239650, gene-QOZ80_3BG0288370 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.4HG0394810.1.CDS1 |
| Poaceae | Lolium multiflorum | 2 | gene-QYE76_069610, gene-QYE76_069639 |
| Poaceae | Oryza coarctata | 2 | Oco05G007320, Oco06G007570 |
| Poaceae | Oryza sativa | 1 | LOC_Os03g13010.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_01G430900 |
| Poaceae | Puccinellia tenuiflora | 1 | Pt_Chr0101869 |
| Poaceae | Sporobolus alterniflorus | 3 | Chr01G028410, Chr07G000990, Chr12G011040 |
| Poaceae | Thinopyrum elongatum | 1 | Tel4E01G408400 |
| Poaceae | Triticum dicoccoides | 3 | gene_TRIDC2AG063990, gene_TRIDC4AG009160 ... |
| Poaceae | Triticum aestivum | 3 | TraesCS4A02G060800.1.cds1, TraesCS4B02G236200.1.cds1 ... |
| Poaceae | Zea mays | 2 | Zm00001eb009460_P001, Zm00001eb399480_P001 |
| Poaceae | Zoysia japonica | 2 | nbis-gene-2405, nbis-gene-4004 |
| Poaceae | Zoysia macrostachya | 2 | Zma_g1730, Zma_g4108 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG03.622, evm.TU.LG12.1105 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc03g27840 |
| Rhizophoraceae | Bruguiera sexangula | 3 | evm.TU.Scaffold_3_RagTag.1188, evm.TU.Scaffold_6_RagTag.1773 ... |
| Rhizophoraceae | Carallia pectinifolia | 3 | nbisL1-mrna-17384, nbisL1-mrna-781, nbisL1-mrna-9345 |
| Rhizophoraceae | Ceriops tagal | 3 | nbisL1-mrna-14460, nbisL1-mrna-17826, nbisL1-mrna-20168 |
| Rhizophoraceae | Ceriops zippeliana | 3 | nbisL1-mrna-11991, nbisL1-mrna-20612, nbisL1-mrna-2442 |
| Rhizophoraceae | Kandelia candel | 3 | add.evm.TU.utg000011l.438, add.evm.TU.utg000018l.98 ... |
| Rhizophoraceae | Kandelia obovata | 2 | Maker00001895, Maker00002855 |
| Rhizophoraceae | Rhizophora apiculata | 3 | nbisL1-mrna-19241, nbisL1-mrna-21279, nbisL1-mrna-22970 |
| Rhizophoraceae | Rhizophora mangle | 3 | nbisL1-mrna-17108, nbisL1-mrna-1886, nbisL1-mrna-3312 |
| Salicaceae | Populus euphratica | 3 | populus_peu13102, populus_peu32076, populus_peu32077 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132627754 |
| Solanaceae | Solanum chilense | 1 | SOLCI001416200 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107018243 |
| Tamaricaceae | Reaumuria soongarica | 1 | STRG.31108_chr11_+ |
| Tamaricaceae | Tamarix chinensis | 2 | TC04G2692, TC10G2369 |
| Zosteraceae | Zostera marina | 1 | Zosma06g01790.v3.1 |