Basic Information
Locus ID:
Ag6G00947
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 |
|---|---|---|---|---|
| chr6 | 38692314 | 38693887 | - | Ag6G00947 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 7.46 | 39,426.27 Da | 47.29 | 110.03 | 0.14 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd16664 | RING-Ubox_PUB | 9 | 50 | 4.81674E-25 | - |
| Pfam | PF04564 | U-box domain | 6 | 72 | 3.2E-20 | IPR003613 |
| SUPERFAMILY | SSF57850 | RING/U-box | 3 | 73 | 1.01E-26 | - |
| SUPERFAMILY | SSF48371 | ARM repeat | 87 | 358 | 5.76E-32 | IPR016024 |
| Gene3D | G3DSA:1.25.10.10 | - | 85 | 265 | 3.0E-20 | IPR011989 |
| Gene3D | G3DSA:1.25.10.10 | - | 266 | 359 | 1.7E-10 | IPR011989 |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 5 | 75 | 4.4E-27 | IPR013083 |
| SMART | SM00504 | Ubox_2 | 8 | 72 | 5.6E-34 | IPR003613 |
| ProSiteProfiles | PS51698 | U-box domain profile. | 4 | 79 | 39.126297 | IPR003613 |
Gene Ontology
Biological Process:
Molecular Function:
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT4G21350.1 | plant U-box 8. Encodes a U-box/ARM repeat protein required fore self-incompatibility. | 0 |
| RefSeq | XP_017231382.1 | PREDICTED: U-box domain-containing protein 8 [Daucus carota subsp. sativus] | 0 |
| O81902 | U-box domain-containing protein 8 OS=Arabidopsis thaliana OX=3702 GN=PUB8 PE=2 SV=1 | 0 | |
| TrEMBL | A0A5B6ZRV8 | RING-type E3 ubiquitin transferase OS=Davidia involucrata OX=16924 GN=Din_015687 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 23.144768 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 20.141491 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 17.283432 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 20.83028 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 18.537498 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 25.584602 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 22.158657 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 23.95509 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 21.490705 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 20.066488 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 21.693512 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 20.309435 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 17.515331 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 19.895163 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 8.746836 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 7.155132 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 7.582217 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 17.856123 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 12.069309 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 13.207191 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 19.852377 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 17.581612 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 14.04245 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 14.242619 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 15.649532 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 20.84477 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 18.369406 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 16.800947 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 17.762905 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 4.302456 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 9.540721 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 7.048029 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 25.837284 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 13.672466 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 32.562965 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 12.710672 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 7.202479 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 8.124382 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 24.733833 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 17.567627 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 7.525513 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 15.345622 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 21.282347 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 35.31443 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 31.812584 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 16.16482 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 28.132887 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 9.60592 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 9.747554 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 7.948309 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 2 | jg20369, jg21947 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_201 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah017799 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg25993, Sbi_jg9813 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg18865 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00023818 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl45677, Sgl50436 |
| Amaranthaceae | Chenopodium album | 2 | gene:ENSEOMG00000032504, gene:ENSEOMG00000047821 |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.8AG0003440, CQ.Regalona.r1.8BG0003500 |
| Apiaceae | Apium graveolens | 1 | Ag6G00947 |
| Arecaceae | Cocos nucifera | 2 | COCNU_12G003940, scaffold013173G000010 |
| Arecaceae | Phoenix dactylifera | 1 | gene-LOC120112704 |
| Asparagaceae | Asparagus officinalis | 1 | AsparagusV1_06.264.V1.1 |
| Asteraceae | Flaveria trinervia | 4 | Ftri15G00108, Ftri18G17509, Ftri18G26680, Ftri1G02617 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT4G21350.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10025498m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp7g19440.v2.2 |
| Brassicaceae | Brassica nigra | 2 | BniB02g044380.2N, BniB05g015740.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq04G1512 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl04G1681 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno17g06330 |
| Hydrocharitaceae | Thalassia testudinum | 2 | gene.Thate02g23260, gene.Thate07g19130 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 1 | nbisL1-mrna-4817 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG12.1076 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00038195 |
| Poaceae | Echinochloa crus-galli | 5 | AH04.966, AH08.278, BH05.2124, BH08.268, CH08.325 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_8AG0616790, gene-QOZ80_8BG0644370 |
| Poaceae | Lolium multiflorum | 1 | gene-QYE76_052819 |
| Poaceae | Oryza coarctata | 2 | Oco15G001720, Oco16G001840 |
| Poaceae | Oryza sativa | 1 | LOC_Os08g04470.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_07G038000 |
| Poaceae | Sporobolus alterniflorus | 7 | Chr02G022540, Chr11G013480, Chr13G021670, Chr16G000700 ... |
| Poaceae | Thinopyrum elongatum | 1 | Tel7E01G521000 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC7AG042830, gene_TRIDC7BG034030 |
| Poaceae | Triticum aestivum | 3 | TraesCS7A02G306800.1.cds1, TraesCS7B02G207100.1.cds1 ... |
| Poaceae | Zea mays | 3 | Zm00001eb046930_P001, Zm00001eb046940_P001 ... |
| Poaceae | Zoysia japonica | 2 | nbis-gene-41529, nbis-gene-57290 |
| Poaceae | Zoysia macrostachya | 2 | Zma_g22446, Zma_g23587 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG18.762, evm.TU.LG20.1139 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc10g00970 |
| Rhizophoraceae | Bruguiera sexangula | 2 | evm.TU.Scaffold_12_RagTag.950, evm.TU.Scaffold_13_RagTag.136 |
| Rhizophoraceae | Carallia pectinifolia | 3 | nbisL1-mrna-23877, nbisL1-mrna-29608, nbisL1-mrna-29827 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-14546 |
| Rhizophoraceae | Ceriops zippeliana | 2 | nbisL1-mrna-20838, nbisL1-mrna-21662 |
| Rhizophoraceae | Kandelia candel | 2 | add.evm.TU.utg000015l.32, add.evm.TU.utg000027l.28 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00017383 |
| Rhizophoraceae | Rhizophora apiculata | 2 | nbisL1-mrna-19148, nbisL1-mrna-20970 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-23225 |
| Salicaceae | Populus euphratica | 2 | populus_peu10214, populus_peu18324 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132622902 |
| Solanaceae | Solanum chilense | 1 | SOLCI002695400 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107010334 |
| Tamaricaceae | Reaumuria soongarica | 2 | STRG.17825_chr09_-, STRG.22111_chr09_- |
| Tamaricaceae | Tamarix chinensis | 2 | TC07G1166, TC07G2569 |
| Zosteraceae | Zostera marina | 1 | Zosma05g20500.v3.1 |