Basic Information
Locus ID:
Ag6G01023
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 | 44361019 | 44368772 | + | Ag6G01023 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 5.55 | 45,781.11 Da | 56.72 | 72.19 | -0.79 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd16531 | RING-HC_RING1_like | 84 | 124 | 1.57313E-23 | - |
| Pfam | PF13923 | Zinc finger, C3HC4 type (RING finger) | 83 | 123 | 8.0E-12 | - |
| SUPERFAMILY | SSF57850 | RING/U-box | 68 | 155 | 1.9E-16 | - |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 77 | 147 | 1.8E-18 | IPR013083 |
| Gene3D | G3DSA:3.10.20.90 | - | 281 | 402 | 2.3E-5 | - |
| SMART | SM00184 | ring_2 | 84 | 123 | 9.7E-7 | IPR001841 |
| ProSiteProfiles | PS50089 | Zinc finger RING-type profile. | 84 | 124 | 12.076194 | IPR001841 |
| ProSitePatterns | PS00518 | Zinc finger RING-type signature. | 100 | 109 | - | IPR017907 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 65 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 23 | 60 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 175 | 231 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 213 | 231 | - | - |
| Coils | Coil | Coil | 161 | 181 | - | - |
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT5G44280.1 | RING 1A. Encodes a nuclear localized protein with similarity to animal polycomb repressive core complex1 (PRC1) core component RING.Appears to function redundantly with ATRING1b, a close paralog. Both interact physically with CLF and LHP1 and appear to function together to repress class I KNOX gene expression. | 0 |
| RefSeq | XP_017236202.1 | PREDICTED: putative E3 ubiquitin-protein ligase RING1a isoform X1 [Daucus carota subsp. sativus] | 0 |
| Q9FKW0 | Putative E3 ubiquitin-protein ligase RING1a OS=Arabidopsis thaliana OX=3702 GN=RING1A PE=1 SV=2 | 0 | |
| TrEMBL | A0A166F079 | RING-type domain-containing protein OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_008024 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 28.941675 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 17.016489 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 18.814487 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 20.382061 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 16.757648 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 20.574467 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 15.814737 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 18.303753 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 26.472969 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 25.698587 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 25.82428 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 26.985939 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 23.478659 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 24.849129 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 11.085052 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 10.401877 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 9.585708 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 10.855098 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 11.641316 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 11.003529 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 11.685444 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 11.12608 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 11.642251 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 10.545977 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 13.29674 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 10.222929 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 10.64395 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 8.228109 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 11.104455 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 3.379192 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 4.03371 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 3.319887 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 21.632494 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 15.088635 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 23.630341 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 11.616322 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 4.553827 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 8.183017 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 9.228932 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 4.451777 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 2.776129 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 17.016306 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 18.581516 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 20.136786 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 15.866785 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 17.752901 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 14.48065 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 13.867575 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 17.401915 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 18.374254 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 5 | jg20271, jg22065, jg24915, jg38682, jg38684 |
| Aizoaceae | Mesembryanthemum crystallinum | 2 | gene_21077, gene_22227 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah018075 |
| Amaranthaceae | Beta vulgaris | 2 | BVRB_8g182790, BVRB_9g205200 |
| Amaranthaceae | Salicornia bigelovii | 4 | Sbi_jg11766, Sbi_jg26006, Sbi_jg46644, Sbi_jg9835 |
| Amaranthaceae | Salicornia europaea | 2 | Seu_jg18856, Seu_jg20998 |
| Amaranthaceae | Suaeda aralocaspica | 2 | GOSA_00017071, GOSA_00025056 |
| Amaranthaceae | Suaeda glauca | 8 | Sgl43709, Sgl45967, Sgl45968, Sgl50665, Sgl50666, Sgl79963 ... |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000011781, gene:ENSEOMG00000034280 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.8AG0005590, CQ.Regalona.r1.8BG0005790 |
| Anacardiaceae | Pistacia vera | 2 | pistato.v30020090, pistato.v30072970 |
| Apiaceae | Apium graveolens | 1 | Ag6G01023 |
| Arecaceae | Cocos nucifera | 1 | COCNU_06G012430 |
| Arecaceae | Phoenix dactylifera | 2 | gene-LOC103696416, gene-LOC103707151 |
| Asparagaceae | Asparagus officinalis | 2 | AsparagusV1_03.1134.V1.1, AsparagusV1_07.3820.V1.1 |
| Asteraceae | Flaveria trinervia | 2 | Ftri15G10417, Ftri18G26639 |
| Brassicaceae | Arabidopsis thaliana | 2 | AT1G03770.2, AT5G44280.2 |
| Brassicaceae | Eutrema salsugineum | 2 | Thhalv10003181m.g.v1.0, Thhalv10007494m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 2 | Sp1g02630.v2.2, Sp2g09100.v2.2 |
| Brassicaceae | Brassica nigra | 3 | BniB02g061560.2N, BniB04g017150.2N, BniB06g046970.2N |
| Casuarinaceae | Casuarina equisetifolia | 2 | Ceq01G2192, Ceq02G2656 |
| Casuarinaceae | Casuarina glauca | 2 | Cgl01G2478, Cgl02G2743 |
| Cymodoceaceae | Cymodocea nodosa | 2 | gene.Cymno13g01450, gene.Cymno17g05260 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate04g15830 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 2 | nbisL1-mrna-11703, nbisL1-mrna-7615 |
| Nitrariaceae | Nitraria sibirica | 2 | evm.TU.LG04.1807, evm.TU.LG12.921 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00038291 |
| Plumbaginaceae | Limonium bicolor | 2 | Lb1G00186, Lb3G19394 |
| Poaceae | Echinochloa crus-galli | 10 | AH01.1556, AH02.3556, AH05.1902, BH01.1747, BH02.3404 ... |
| Poaceae | Eleusine coracana subsp. coracana | 3 | gene-QOZ80_1AG0036500, gene-QOZ80_5AG0368080 ... |
| Poaceae | Hordeum vulgare | 2 | HORVU.MOREX.r3.1HG0068410.1, HORVU.MOREX.r3.3HG0294850.1 |
| Poaceae | Lolium multiflorum | 5 | gene-QYE76_014710, gene-QYE76_055987, gene-QYE76_056112 ... |
| Poaceae | Oryza coarctata | 5 | Oco01G022330, Oco02G022990, Oco02G023000, Oco09G013170 ... |
| Poaceae | Oryza sativa | 2 | LOC_Os01g58400.1, LOC_Os05g41795.1 |
| Poaceae | Paspalum vaginatum | 3 | gene-BS78_01G172900, gene-BS78_03G304200 ... |
| Poaceae | Puccinellia tenuiflora | 2 | Pt_Chr0504375, Pt_Chr0601710 |
| Poaceae | Sporobolus alterniflorus | 7 | Chr01G017710, Chr02G007360, Chr05G026120, Chr08G023840 ... |
| Poaceae | Thinopyrum elongatum | 2 | Tel1E01G510300, Tel3E01G524000 |
| Poaceae | Triticum dicoccoides | 4 | gene_TRIDC1AG047050, gene_TRIDC1BG053200 ... |
| Poaceae | Triticum aestivum | 7 | TraesCS1A02G315400.1, TraesCS1B02G327300.2 ... |
| Poaceae | Zea mays | 4 | Zm00001eb043300_P001, Zm00001eb150860_P001 ... |
| Poaceae | Zoysia japonica | 4 | nbis-gene-11705, nbis-gene-14341, nbis-gene-25280 ... |
| Poaceae | Zoysia macrostachya | 4 | Zma_g11332, Zma_g26931, Zma_g28508, Zma_g8809 |
| Portulacaceae | Portulaca oleracea | 4 | evm.TU.LG06.1082, evm.TU.LG11.437, evm.TU.LG18.1451 ... |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc10g03450 |
| Rhizophoraceae | Bruguiera sexangula | 2 | evm.TU.Scaffold_12_RagTag.830, evm.TU.Scaffold_13_RagTag.245 |
| Rhizophoraceae | Carallia pectinifolia | 1 | nbisL1-mrna-29457 |
| Rhizophoraceae | Ceriops tagal | 2 | nbisL1-mrna-20580, nbisL1-mrna-9966 |
| Rhizophoraceae | Ceriops zippeliana | 2 | nbisL1-mrna-20921, nbisL1-mrna-21569 |
| Rhizophoraceae | Kandelia candel | 2 | evm.TU.utg000015l.150, evm.TU.utg000027l.136 |
| Rhizophoraceae | Kandelia obovata | 2 | Maker00006335, Maker00015523 |
| Rhizophoraceae | Rhizophora apiculata | 2 | nbisL1-mrna-10619, nbisL1-mrna-5946 |
| Rhizophoraceae | Rhizophora mangle | 2 | nbisL1-mrna-16879, nbisL1-mrna-21941 |
| Salicaceae | Populus euphratica | 4 | populus_peu10037, populus_peu18148, populus_peu22509 ... |
| Solanaceae | Lycium barbarum | 3 | gene-LOC132616799, gene-LOC132619456, gene-LOC132624916 |
| Solanaceae | Solanum chilense | 2 | SOLCI004511600, SOLCI006557200 |
| Solanaceae | Solanum pennellii | 2 | gene-LOC107009135, gene-LOC107023959 |
| Tamaricaceae | Reaumuria soongarica | 2 | gene_17515, gene_17634 |
| Tamaricaceae | Tamarix chinensis | 2 | TC07G1354, TC07G2074 |
| Zosteraceae | Zostera marina | 2 | Zosma03g22930.v3.1, Zosma05g21010.v3.1 |