Basic Information
Locus ID:
Ag8G02271
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 |
|---|---|---|---|---|
| chr8 | 265991448 | 265996339 | - | Ag8G02271 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 5.33 | 86,651.88 Da | 49.50 | 92.66 | -0.31 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd16664 | RING-Ubox_PUB | 289 | 329 | 2.01281E-23 | - |
| Pfam | PF05804 | Kinesin-associated protein (KAP) | 469 | 591 | 3.7E-5 | - |
| Pfam | PF04564 | U-box domain | 284 | 353 | 2.1E-17 | IPR003613 |
| SUPERFAMILY | SSF48371 | ARM repeat | 418 | 716 | 1.26E-32 | IPR016024 |
| SUPERFAMILY | SSF57850 | RING/U-box | 281 | 359 | 3.53E-28 | - |
| Gene3D | G3DSA:1.25.10.10 | - | 403 | 733 | 5.8E-37 | IPR011989 |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 283 | 358 | 5.6E-26 | IPR013083 |
| SMART | SM00185 | arm_5 | 511 | 549 | 65.0 | IPR000225 |
| SMART | SM00185 | arm_5 | 550 | 591 | 9.1 | IPR000225 |
| SMART | SM00504 | Ubox_2 | 286 | 349 | 1.3E-30 | IPR003613 |
| SMART | SM00185 | arm_5 | 465 | 509 | 2.0 | IPR000225 |
| ProSiteProfiles | PS50176 | Armadillo/plakoglobin ARM repeat profile. | 476 | 522 | 10.6224 | IPR000225 |
| ProSiteProfiles | PS51698 | U-box domain profile. | 282 | 356 | 38.99361 | IPR003613 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 719 | 756 | - | - |
Gene Ontology
Biological Process:
Molecular Function:
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT1G24330.1 | ARM repeat superfamily protein. | 0 |
| RefSeq | XP_017221844.1 | PREDICTED: U-box domain-containing protein 6-like [Daucus carota subsp. sativus] | 0 |
| O48700 | U-box domain-containing protein 6 OS=Arabidopsis thaliana OX=3702 GN=PUB6 PE=2 SV=2 | 0 | |
| TrEMBL | A0A175YR31 | RING-type E3 ubiquitin transferase OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_026473 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 7.684921 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 5.63407 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 6.490462 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 6.350142 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 5.776045 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 4.866167 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 4.678562 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 1.979426 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 9.853661 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 8.546754 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 11.071161 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 8.355102 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 10.595365 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 9.412138 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 30.506092 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 27.077366 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 40.108639 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 10.433168 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 11.860388 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 7.10424 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 7.704764 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 14.819226 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 17.62491 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 15.799835 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 13.490399 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 15.105156 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 13.910854 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 10.799755 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 18.565088 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 1.834262 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 3.220085 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 2.697014 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 2.25475 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 5.394846 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 2.183594 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 2.01133 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 1.272252 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 1.635699 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 7.804612 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 8.661923 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 2.509816 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 2.292493 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 1.350908 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 0.841888 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 1.132427 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 1.471415 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 3.495374 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 15.233791 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 14.462788 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 16.81691 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 2 | jg34530, jg9574 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_18028 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah013882 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_6g151150 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg42698, Sbi_jg45321 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg26853 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00002618 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl35042, Sgl40433 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000000118, gene:ENSEOMG00000015243 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.6AG0003300, CQ.Regalona.r1.6BG0003180 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30228380 |
| Apiaceae | Apium graveolens | 3 | Ag1G01237, Ag6G00256, Ag8G02271 |
| Arecaceae | Cocos nucifera | 2 | COCNU_02G012920, scaffold003417G000020 |
| Arecaceae | Phoenix dactylifera | 4 | gene-LOC103702927, gene-LOC103708539, gene-LOC103715365 ... |
| Asparagaceae | Asparagus officinalis | 2 | AsparagusV1_02.1012.V1.1, AsparagusV1_04.1922.V1.1 |
| Asteraceae | Flaveria trinervia | 2 | Ftri13G30757, Ftri9G06059 |
| Brassicaceae | Arabidopsis thaliana | 4 | AT1G15165.1, AT1G24330.1, AT1G27910.1, AT1G67530.1 |
| Brassicaceae | Eutrema salsugineum | 3 | Thhalv10006862m.g.v1.0, Thhalv10006874m.g.v1.0 ... |
| Brassicaceae | Schrenkiella parvula | 3 | Sp1g23440.v2.2, Sp1g24090.v2.2, Sp5g22540.v2.2 |
| Brassicaceae | Brassica nigra | 5 | BniB03g017390.2N, BniB03g017910.2N, BniB03g032470.2N ... |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq07G1049 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl07G1093 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno07g02980 |
| Hydrocharitaceae | Thalassia testudinum | 2 | gene.Thate05g10870, gene.Thate08g08300 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG03.746 |
| Plantaginaceae | Plantago ovata | 2 | Pov_00001245, Pov_00022220 |
| Plumbaginaceae | Limonium bicolor | 2 | Lb1G00290, Lb6G29682 |
| Poaceae | Echinochloa crus-galli | 6 | AH02.4207, AH09.1374, BH02.4231, BH09.1555, CH02.4256 ... |
| Poaceae | Eleusine coracana subsp. coracana | 4 | gene-QOZ80_1AG0043270, gene-QOZ80_1BG0093190 ... |
| Poaceae | Hordeum vulgare | 2 | HORVU.MOREX.r3.2HG0177410.1, HORVU.MOREX.r3.3HG0305270.1 |
| Poaceae | Lolium multiflorum | 2 | gene-QYE76_044870, gene-QYE76_057129 |
| Poaceae | Oryza coarctata | 4 | Oco01G027490, Oco02G028570, Oco07G009260, Oco08G009130 |
| Poaceae | Oryza sativa | 2 | LOC_Os01g67500.1, LOC_Os04g41250.1 |
| Poaceae | Paspalum vaginatum | 2 | gene-BS78_03G370000, gene-BS78_06G141300 |
| Poaceae | Puccinellia tenuiflora | 2 | Pt_Chr0600273, Pt_Chr0600303 |
| Poaceae | Sporobolus alterniflorus | 7 | Chr03G022060, Chr05G031040, Chr08G020010, Chr0G024220 ... |
| Poaceae | Thinopyrum elongatum | 2 | Tel2E01G604900, Tel3E01G626000 |
| Poaceae | Triticum dicoccoides | 4 | gene_TRIDC2AG050270, gene_TRIDC2BG053530 ... |
| Poaceae | Triticum aestivum | 6 | TraesCS2A02G347800.1, TraesCS2B02G366200.1 ... |
| Poaceae | Zea mays | 4 | Zm00001eb079010_P001, Zm00001eb144430_P001 ... |
| Poaceae | Zoysia japonica | 4 | nbis-gene-11095, nbis-gene-28457, nbis-gene-36930 ... |
| Poaceae | Zoysia macrostachya | 3 | Zma_g11737, Zma_g19948, Zma_g9200 |
| Portulacaceae | Portulaca oleracea | 3 | evm.TU.LG03.1339, evm.TU.LG12.394, evm.TU.LG13.85 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc05g15100 |
| Rhizophoraceae | Bruguiera sexangula | 2 | evm.TU.Scaffold_15_RagTag.856, evm.TU.Scaffold_17_RagTag.137 |
| Rhizophoraceae | Carallia pectinifolia | 3 | nbisL1-mrna-23217, nbisL1-mrna-27041, nbisL1-mrna-27229 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-11356 |
| Rhizophoraceae | Ceriops zippeliana | 2 | nbisL1-mrna-14653, nbisL1-mrna-15548 |
| Rhizophoraceae | Kandelia candel | 2 | evm.TU.utg000001l.473, evm.TU.utg000013l.86 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00002595 |
| Rhizophoraceae | Rhizophora apiculata | 2 | nbisL1-mrna-11183, nbisL1-mrna-6994 |
| Rhizophoraceae | Rhizophora mangle | 2 | nbisL1-mrna-15974, nbisL1-mrna-17670 |
| Salicaceae | Populus euphratica | 2 | populus_peu07627, populus_peu21660 |
| Solanaceae | Lycium barbarum | 2 | gene-LOC132613822, gene-LOC132641262 |
| Solanaceae | Solanum chilense | 1 | SOLCI002168400 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107020536 |
| Tamaricaceae | Reaumuria soongarica | 2 | STRG.19743_chr07_-, gene_2724 |
| Tamaricaceae | Tamarix chinensis | 2 | TC04G0720, TC11G0408 |
| Zosteraceae | Zostera marina | 2 | Zosma02g00940.v3.1, Zosma05g07090.v3.1 |