Basic Information
Locus ID:
Ag8G01668
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
Zinc finger, C3HC4 type (RING finger)
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr8 | 228082403 | 228086899 | + | Ag8G01668 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 7.65 | 99,529.72 Da | 49.94 | 71.39 | -0.57 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| Pfam | PF13920 | Zinc finger, C3HC4 type (RING finger) | 842 | 889 | 5.7E-11 | - |
| SUPERFAMILY | SSF57850 | RING/U-box | 840 | 892 | 1.1E-6 | - |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 824 | 896 | 1.2E-12 | IPR013083 |
| ProSiteProfiles | PS50089 | Zinc finger RING-type profile. | 845 | 885 | 10.069786 | IPR001841 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 8 | 45 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 8 | 23 | - | - |
| Coils | Coil | Coil | 576 | 620 | - | - |
| Coils | Coil | Coil | 759 | 793 | - | - |
| Coils | Coil | Coil | 632 | 659 | - | - |
| Coils | Coil | Coil | 695 | 750 | - | - |
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT4G03000.1 | RING/U-box superfamily protein. | 0 |
| RefSeq | XP_017222843.1 | PREDICTED: putative E3 ubiquitin-protein ligase RF298 isoform X1 [Daucus carota subsp. sativus] | 0 |
| Q0WPJ7 | Putative E3 ubiquitin-protein ligase RF298 OS=Arabidopsis thaliana OX=3702 GN=RF298 PE=2 SV=1 | 0 | |
| TrEMBL | A0A175YQR3 | RING-type domain-containing protein OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_027130 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 48.540607 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 41.347221 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 35.80732 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 38.086239 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 37.418209 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 28.0238 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 28.268932 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 25.221565 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 33.764145 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 34.133751 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 34.219635 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 33.742363 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 34.686592 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 30.756702 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 22.351103 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 23.280619 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 22.804817 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 37.59956 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 26.19096 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 35.101021 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 41.756386 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 29.606224 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 27.039829 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 27.236479 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 31.659067 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 35.644844 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 27.163326 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 29.466141 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 32.262882 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 7.928216 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 9.504093 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 7.805782 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 17.247227 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 15.298219 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 20.098934 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 12.974292 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 8.113952 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 9.804529 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 16.920542 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 18.698215 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 12.927886 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 27.533302 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 25.37672 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 38.506527 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 32.447075 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 24.635689 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 34.994545 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 21.846285 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 22.458004 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 21.032364 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 5 | jg16107, jg27952, jg37895, jg37896, jg37897 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_4790 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah022473 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_3g065240 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg59107, Sbi_jg63529 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg23366 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00012821 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl02499, Sgl07653 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000012850, gene:ENSEOMG00000030192 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.3AG0024970, CQ.Regalona.r1.3BG0025900 |
| Anacardiaceae | Pistacia vera | 2 | pistato.v30011430, pistato.v30238100 |
| Apiaceae | Apium graveolens | 2 | Ag8G01668, AgUnG00547 |
| Arecaceae | Cocos nucifera | 3 | COCNU_01G002920, COCNU_01G002930, COCNU_01G002940 |
| Arecaceae | Phoenix dactylifera | 2 | gene-LOC103698200, gene-LOC103716183 |
| Asparagaceae | Asparagus officinalis | 2 | AsparagusV1_02.1987.V1.1, AsparagusV1_05.3139.V1.1 |
| Asteraceae | Flaveria trinervia | 2 | Ftri2G01915, Ftri3G06927 |
| Brassicaceae | Arabidopsis thaliana | 2 | AT1G03365.1, AT4G03000.1 |
| Brassicaceae | Eutrema salsugineum | 2 | Thhalv10006805m.g.v1.0, Thhalv10028432m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 2 | Sp1g02370.v2.2, Sp6g03040.v2.2 |
| Brassicaceae | Brassica nigra | 5 | BniB03g039410.2N, BniB05g039040.2N, BniB06g018380.2N ... |
| Casuarinaceae | Casuarina equisetifolia | 2 | Ceq06G2154, Ceq09G1257 |
| Casuarinaceae | Casuarina glauca | 2 | Cgl06G2265, Cgl09G1343 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno04g05090 |
| Hydrocharitaceae | Thalassia testudinum | 2 | gene.Thate02g01950, gene.Thate06g16000 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 3 | nbisL1-mrna-12127, nbisL1-mrna-5058, nbisL1-mrna-6294 |
| Nitrariaceae | Nitraria sibirica | 2 | evm.TU.LG04.229, evm.TU.LG11.1405 |
| Plantaginaceae | Plantago ovata | 2 | Pov_00008151, Pov_00022465 |
| Plumbaginaceae | Limonium bicolor | 1 | Lb8G35606 |
| Poaceae | Echinochloa crus-galli | 3 | AH03.2908, BH03.3044, CH03.3234 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_5AG0405480, gene-QOZ80_5BG0453610 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.1HG0019060.1 |
| Poaceae | Lolium multiflorum | 1 | gene-QYE76_009524 |
| Poaceae | Oryza coarctata | 2 | Oco09G001950, Oco10G002010 |
| Poaceae | Oryza sativa | 1 | LOC_Os05g04950.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_02G268700 |
| Poaceae | Puccinellia tenuiflora | 1 | Pt_Chr0605112 |
| Poaceae | Sporobolus alterniflorus | 5 | Chr01G012680, Chr12G024060, Chr12G024080, Chr18G001360 ... |
| Poaceae | Thinopyrum elongatum | 1 | Tel1E01G165300 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC1AG011980, gene_TRIDC1BG014770 |
| Poaceae | Triticum aestivum | 3 | TraesCS1A02G084200.1, TraesCS1B02G101700.1 ... |
| Poaceae | Zea mays | 2 | Zm00001eb104480_P001, Zm00001eb320610_P001 |
| Poaceae | Zoysia japonica | 1 | nbis-gene-50116 |
| Poaceae | Zoysia macrostachya | 1 | Zma_g26400 |
| Portulacaceae | Portulaca oleracea | 4 | evm.TU.LG07.992, evm.TU.LG13.247, evm.TU.LG13.248 ... |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc01g11010 |
| Rhizophoraceae | Bruguiera sexangula | 4 | evm.TU.Scaffold_3_RagTag.511, evm.TU.Scaffold_3_RagTag.513 ... |
| Rhizophoraceae | Carallia pectinifolia | 3 | nbisL1-mrna-11408, nbisL1-mrna-1451, nbisL1-mrna-21341 |
| Rhizophoraceae | Ceriops tagal | 3 | nbisL1-mrna-19921, nbisL1-mrna-7058, nbisL1-mrna-7715 |
| Rhizophoraceae | Ceriops zippeliana | 3 | nbisL1-mrna-11552, nbisL1-mrna-18425, nbisL1-mrna-6234 |
| Rhizophoraceae | Kandelia candel | 2 | evm.TU.utg000006l.271, evm.TU.utg000019l.909 |
| Rhizophoraceae | Kandelia obovata | 2 | Maker00012799, Maker00013494 |
| Rhizophoraceae | Rhizophora apiculata | 2 | nbisL1-mrna-10022, nbisL1-mrna-17321 |
| Rhizophoraceae | Rhizophora mangle | 2 | nbisL1-mrna-2061, nbisL1-mrna-7553 |
| Salicaceae | Populus euphratica | 5 | populus_peu07827, populus_peu28401, populus_peu28402 ... |
| Solanaceae | Lycium barbarum | 4 | gene-LOC132605605, gene-LOC132609731, gene-LOC132642049 ... |
| Solanaceae | Solanum chilense | 6 | SOLCI001974100, SOLCI004574100, SOLCI005629200 ... |
| Solanaceae | Solanum pennellii | 7 | gene-LOC107007909, gene-LOC107022020, gene-LOC107030819 ... |
| Tamaricaceae | Reaumuria soongarica | 1 | STRG.4632_chr02_+ |
| Tamaricaceae | Tamarix chinensis | 1 | TC12G1511 |
| Zosteraceae | Zostera marina | 2 | Zosma02g25600.v3.1, Zosma03g20280.v3.1 |