Basic Information
Locus ID:
Ag6G00693
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
E3 ubiquitin-protein ligase
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr6 | 24919540 | 24923227 | - | Ag6G00693 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 4.47 | 22,166.37 Da | 58.57 | 69.20 | -0.57 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| Pfam | PF12678 | RING-H2 zinc finger domain | 145 | 188 | 3.6E-12 | IPR024766 |
| SUPERFAMILY | SSF57850 | RING/U-box | 141 | 195 | 7.07E-19 | - |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 119 | 194 | 1.1E-15 | IPR013083 |
| SMART | SM00184 | ring_2 | 148 | 188 | 3.2E-6 | IPR001841 |
| ProSiteProfiles | PS50089 | Zinc finger RING-type profile. | 148 | 189 | 11.95817 | IPR001841 |
Gene Ontology
Molecular Function:
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT5G41350.1 | RING/U-box superfamily protein. | 0 |
| RefSeq | XP_017231221.1 | PREDICTED: probable E3 ubiquitin-protein ligase RHB1A [Daucus carota subsp. sativus] | 0 |
| Q2HIJ8 | Probable E3 ubiquitin-protein ligase RHB1A OS=Arabidopsis thaliana OX=3702 GN=RHB1A PE=2 SV=1 | 0 | |
| TrEMBL | A0A5J4ZXJ8 | RING-type domain-containing protein OS=Nyssa sinensis OX=561372 GN=F0562_013211 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 18.657061 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 17.193584 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 21.938091 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 23.105263 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 25.14159 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 28.417423 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 23.232458 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 22.875555 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 25.851112 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 27.587812 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 27.343569 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 24.652306 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 29.24259 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 24.436352 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 30.297646 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 22.597788 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 30.790634 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 37.79504 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 31.172495 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 52.707977 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 62.608509 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 52.994816 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 50.184425 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 53.292458 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 43.146519 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 37.878021 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 39.021523 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 36.571152 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 42.759418 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 14.21578 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 17.358141 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 15.130015 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 46.291584 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 30.788118 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 51.213181 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 40.050564 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 14.76001 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 29.977139 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 15.636094 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 22.897785 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 16.941311 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 136.911331 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 92.178123 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 75.978035 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 85.181664 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 134.003616 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 81.523476 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 25.741007 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 29.506115 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 32.22768 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 4 | jg23486, jg29374, jg29625, jg7641 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_23606 |
| Amaranthaceae | Atriplex hortensis | 2 | Ah004602, Ah022976 |
| Amaranthaceae | Beta vulgaris | 2 | BVRB_1g004370, BVRB_5g100310 |
| Amaranthaceae | Salicornia bigelovii | 4 | Sbi_jg23893, Sbi_jg4533, Sbi_jg49432, Sbi_jg7721 |
| Amaranthaceae | Salicornia europaea | 2 | Seu_jg12302, Seu_jg5943 |
| Amaranthaceae | Suaeda aralocaspica | 2 | GOSA_00000468, GOSA_00001165 |
| Amaranthaceae | Suaeda glauca | 5 | Sgl11047, Sgl16456, Sgl52058, Sgl52061, Sgl57335 |
| Amaranthaceae | Chenopodium album | 6 | gene:ENSEOMG00000006535, gene:ENSEOMG00000014935 ... |
| Amaranthaceae | Chenopodium quinoa | 4 | CQ.Regalona.r1.2BG0025110, CQ.Regalona.r1.5AG0007150 ... |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30004710 |
| Apiaceae | Apium graveolens | 2 | Ag6G00027, Ag6G00693 |
| Arecaceae | Cocos nucifera | 1 | COCNU_09G008390 |
| Arecaceae | Phoenix dactylifera | 2 | gene-LOC103699032, gene-LOC103705477 |
| Asparagaceae | Asparagus officinalis | 3 | AsparagusV1_04.1843.V1.1, AsparagusV1_05.1629.V1.1 ... |
| Asteraceae | Flaveria trinervia | 4 | Ftri13G32126, Ftri16G02347, Ftri18G13380, Ftri7G26787 |
| Brassicaceae | Arabidopsis thaliana | 3 | AT4G00335.1, AT4G23450.2, AT5G41350.1 |
| Brassicaceae | Eutrema salsugineum | 3 | Thhalv10026387m.g.v1.0, Thhalv10027931m.g.v1.0 ... |
| Brassicaceae | Schrenkiella parvula | 4 | Sp6g00400.v2.2, Sp7g00590.v2.2, Sp7g21350.v2.2 ... |
| Brassicaceae | Brassica nigra | 5 | BniB01g025010.2N, BniB02g080460.2N, BniB05g013840.2N ... |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq03G0330 |
| Casuarinaceae | Casuarina glauca | 2 | Cgl03G0405, Cgl03G0424 |
| Cymodoceaceae | Cymodocea nodosa | 2 | gene.Cymno10g09860, gene.Cymno14g05620 |
| Dunaliellaceae | Dunaliella salina | 1 | Dusal.2652s00001.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 2 | gene.Thate07g11080, gene.Thate08g16040 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 3 | nbisL1-mrna-11247, nbisL1-mrna-12609, nbisL1-mrna-2810 |
| Nitrariaceae | Nitraria sibirica | 2 | evm.TU.LG04.845, evm.TU.LG10.1431 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00005238 |
| Plumbaginaceae | Limonium bicolor | 4 | Lb1G02335, Lb1G03541, Lb2G09294, Lb2G11093 |
| Poaceae | Echinochloa crus-galli | 3 | AH07.3982, BH01.2907, CH07.3855 |
| Poaceae | Eleusine coracana subsp. coracana | 4 | gene-QOZ80_2AG0119650, gene-QOZ80_2AG0150890 ... |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.6HG0630600.1 |
| Poaceae | Oryza coarctata | 3 | Oco19G000700, Oco21G004650, Oco22G005270 |
| Poaceae | Oryza sativa | 2 | LOC_Os10g05230.2, LOC_Os11g18947.1 |
| Poaceae | Paspalum vaginatum | 2 | gene-BS78_01G260500, gene-BS78_04G323700 |
| Poaceae | Puccinellia tenuiflora | 3 | Pt_Chr0604461, Pt_Chr0604520, Pt_Chr0605599 |
| Poaceae | Sporobolus alterniflorus | 2 | Chr15G000490, Chr18G005140 |
| Poaceae | Thinopyrum elongatum | 1 | Tel6E01G727100 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC6AG058740, gene_TRIDC6BG069500 |
| Poaceae | Triticum aestivum | 3 | TraesCS6A02G399600.1, TraesCS6B02G439800.1 ... |
| Poaceae | Zea mays | 5 | Zm00001eb026420_P004, Zm00001eb089610_P001 ... |
| Poaceae | Zoysia japonica | 1 | nbis-gene-43023 |
| Poaceae | Zoysia macrostachya | 4 | Zma_g13060, Zma_g13061, Zma_g14736, Zma_g15838 |
| Portulacaceae | Portulaca oleracea | 6 | evm.TU.LG04.2251, evm.TU.LG04.3356, evm.TU.LG06.54 ... |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc06g10060 |
| Rhizophoraceae | Bruguiera sexangula | 3 | evm.TU.Scaffold_14_RagTag.167, evm.TU.Scaffold_16_RagTag.160 ... |
| Rhizophoraceae | Carallia pectinifolia | 3 | nbisL1-mrna-10825, nbisL1-mrna-18225, nbisL1-mrna-22399 |
| Rhizophoraceae | Ceriops tagal | 3 | nbisL1-mrna-10297, nbisL1-mrna-11104, nbisL1-mrna-2845 |
| Rhizophoraceae | Ceriops zippeliana | 3 | nbisL1-mrna-10545, nbisL1-mrna-20336, nbisL1-mrna-8543 |
| Rhizophoraceae | Kandelia candel | 3 | evm.TU.utg000006l.160, evm.TU.utg000007l.274 ... |
| Rhizophoraceae | Kandelia obovata | 3 | Maker00013341, Maker00014402, Maker00018484 |
| Rhizophoraceae | Rhizophora apiculata | 3 | nbisL1-mrna-16028, nbisL1-mrna-3535, nbisL1-mrna-9183 |
| Rhizophoraceae | Rhizophora mangle | 3 | nbisL1-mrna-10915, nbisL1-mrna-6699, nbisL1-mrna-7050 |
| Salicaceae | Populus euphratica | 3 | populus_peu03585, populus_peu27671, populus_peu31645 |
| Solanaceae | Lycium barbarum | 2 | gene-LOC132634881, gene-LOC132645557 |
| Solanaceae | Solanum chilense | 2 | SOLCI001074400, SOLCI002361300 |
| Solanaceae | Solanum pennellii | 2 | gene-LOC107012546, gene-LOC107026945 |
| Tamaricaceae | Reaumuria soongarica | 2 | STRG.29032_chr11_+, gene_15861 |
| Tamaricaceae | Tamarix chinensis | 3 | TC03G2226, TC06G0209, TC09G2242 |
| Zosteraceae | Zostera marina | 1 | Zosma01g21880.v3.1 |