Basic Information
Locus ID:
Ag9G00162
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 |
|---|---|---|---|---|
| chr9 | 5700003 | 5701856 | - | Ag9G00162 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 6.35 | 45,929.48 Da | 47.16 | 107.34 | 0.09 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd16664 | RING-Ubox_PUB | 21 | 62 | 1.60301E-25 | - |
| Pfam | PF04564 | U-box domain | 17 | 88 | 1.2E-21 | IPR003613 |
| SUPERFAMILY | SSF48371 | ARM repeat | 104 | 394 | 4.74E-20 | IPR016024 |
| SUPERFAMILY | SSF57850 | RING/U-box | 6 | 93 | 1.28E-30 | - |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 11 | 93 | 1.6E-29 | IPR013083 |
| Gene3D | G3DSA:1.25.10.10 | - | 94 | 405 | 1.1E-18 | IPR011989 |
| SMART | SM00504 | Ubox_2 | 20 | 83 | 2.3E-34 | IPR003613 |
| ProSiteProfiles | PS51698 | U-box domain profile. | 16 | 90 | 43.938358 | IPR003613 |
Gene Ontology
Biological Process:
Molecular Function:
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT1G49780.1 | plant U-box 26. | 0 |
| RefSeq | XP_017256179.1 | PREDICTED: U-box domain-containing protein 26 [Daucus carota subsp. sativus] | 0 |
| Q9FXA4 | U-box domain-containing protein 26 OS=Arabidopsis thaliana OX=3702 GN=PUB26 PE=2 SV=1 | 0 | |
| TrEMBL | A0A161ZUX0 | RING-type E3 ubiquitin transferase OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_022015 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 7.69599 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 10.872839 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 12.928223 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 19.46291 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 18.403994 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 16.67576 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 14.19748 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 4.327052 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 48.241096 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 46.890259 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 42.302078 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 25.205797 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 33.362133 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 21.174425 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 48.543262 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 39.072639 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 12.392091 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 53.35429 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 45.634052 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 109.685547 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 55.954891 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 19.331478 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 23.878942 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 16.748026 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 30.70789 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 11.25785 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 9.955727 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 14.834444 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 10.337916 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 125.055023 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 131.870544 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 118.36882 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 15.669701 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 14.328761 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 15.435597 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 13.045173 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 31.331884 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 33.526268 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 19.842834 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 31.194864 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 47.373638 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 47.18565 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 112.40361 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 74.238876 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 87.483688 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 58.690655 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 73.305397 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 37.547459 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 11.290243 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 9.48575 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 4 | jg1091, jg26256, jg28665, jg30249 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_21774 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah009908 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_9g216090 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg11160, Sbi_jg46133 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg20476 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00005473 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl55730, Sgl60944 |
| Amaranthaceae | Chenopodium album | 1 | gene:ENSEOMG00000017554 |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.7BG0004910, CQ.Regalona.r1.9AG0019520 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30213590 |
| Apiaceae | Apium graveolens | 1 | Ag9G00162 |
| Arecaceae | Cocos nucifera | 1 | COCNU_02G010610 |
| Arecaceae | Phoenix dactylifera | 1 | gene-LOC103703189 |
| Asteraceae | Flaveria trinervia | 3 | Ftri15G08715, Ftri3G01842, Ftri4G07620 |
| Brassicaceae | Arabidopsis thaliana | 2 | AT1G49780.1, AT3G19380.1 |
| Brassicaceae | Eutrema salsugineum | 2 | Thhalv10011515m.g.v1.0, Thhalv10022190m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 2 | Sp1g36680.v2.2, Sp3g17440.v2.2 |
| Brassicaceae | Brassica nigra | 3 | BniB01g044870.2N, BniB07g006030.2N, BniB07g051300.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq07G2127 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl07G2354 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno08g07850 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate05g13970 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG08.491 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00012321 |
| Poaceae | Echinochloa crus-galli | 2 | AH07.2146, CH07.2008 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_2AG0133440, gene-QOZ80_2BG0189000 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.6HG0603650.1.CDS1 |
| Poaceae | Lolium multiflorum | 2 | gene-QYE76_022806, gene-QYE76_022865 |
| Poaceae | Oryza coarctata | 3 | Oco03G012130, Oco03G024290, Oco04G014180 |
| Poaceae | Oryza sativa | 1 | LOC_Os02g34410.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_04G157800 |
| Poaceae | Sporobolus alterniflorus | 5 | Chr06G010190, Chr07G017270, Chr09G014690, Chr13G010700 ... |
| Poaceae | Thinopyrum elongatum | 1 | Tel6E01G478200 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC6AG039540, gene_TRIDC6BG046490 |
| Poaceae | Triticum aestivum | 3 | TraesCS6A02G256700.1.cds1, TraesCS6B02G268300.1.cds1 ... |
| Poaceae | Zea mays | 2 | Zm00001eb181840_P001, Zm00001eb243330_P001 |
| Poaceae | Zoysia japonica | 3 | nbis-gene-20766, nbis-gene-38521, nbis-gene-47963 |
| Poaceae | Zoysia macrostachya | 4 | Zma_g13669, Zma_g25714, Zma_g30158, Zma_g5112 |
| Portulacaceae | Portulaca oleracea | 4 | evm.TU.LG02.1530, evm.TU.LG08.873, evm.TU.LG09.333 ... |
| Posidoniaceae | Posidonia oceanica | 3 | gene.Posoc04g00190, gene.Posoc04g08880, gene.Posoc05g20400 |
| Rhizophoraceae | Bruguiera sexangula | 2 | evm.TU.Scaffold_1_RagTag.2089, evm.TU.Scaffold_2_RagTag.328 |
| Rhizophoraceae | Carallia pectinifolia | 2 | nbisL1-mrna-4867, nbisL1-mrna-5899 |
| Rhizophoraceae | Ceriops tagal | 2 | nbisL1-mrna-19099, nbisL1-mrna-2201 |
| Rhizophoraceae | Ceriops zippeliana | 2 | nbisL1-mrna-3448, nbisL1-mrna-9810 |
| Rhizophoraceae | Kandelia candel | 2 | add.evm.TU.utg000009l.275, add.evm.TU.utg000016l.87 |
| Rhizophoraceae | Kandelia obovata | 2 | Maker00005578, Maker00016563 |
| Rhizophoraceae | Rhizophora apiculata | 2 | nbisL1-mrna-17716, nbisL1-mrna-18628 |
| Rhizophoraceae | Rhizophora mangle | 2 | nbisL1-mrna-14029, nbisL1-mrna-6061 |
| Salicaceae | Populus euphratica | 2 | populus_peu09016, populus_peu36326 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132599030 |
| Solanaceae | Solanum chilense | 1 | SOLCI005038000 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107010036 |
| Tamaricaceae | Reaumuria soongarica | 1 | STRG.11603_chr02_- |
| Tamaricaceae | Tamarix chinensis | 1 | TC10G0301 |
| Zosteraceae | Zostera marina | 1 | Zosma04g14780.v3.1 |