Basic Information
Locus ID:
Ag1G01406
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 |
|---|---|---|---|---|
| chr1 | 183748689 | 183750025 | + | Ag1G01406 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 5.54 | 39,968.66 Da | 67.08 | 96.92 | -0.02 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd16454 | RING-H2_PA-TM-RING | 154 | 197 | 1.70709E-18 | - |
| Pfam | PF13639 | Ring finger domain | 154 | 197 | 5.0E-13 | IPR001841 |
| SUPERFAMILY | SSF57850 | RING/U-box | 154 | 203 | 3.06E-19 | - |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 133 | 205 | 3.1E-20 | IPR013083 |
| SMART | SM00184 | ring_2 | 155 | 196 | 1.3E-6 | IPR001841 |
| ProSiteProfiles | PS50089 | Zinc finger RING-type profile. | 155 | 197 | 12.312242 | IPR001841 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 265 | 291 | - | - |
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT3G60220.1 | TOXICOS EN LEVADURA 4. Encodes a putative RING-H2 zinc finger protein ATL4 (ATL4). | 0 |
| RefSeq | XP_017226907.1 | PREDICTED: E3 ubiquitin-protein ligase ATL4-like [Daucus carota subsp. sativus] | 0 |
| Q9LY41 | E3 ubiquitin-protein ligase ATL4 OS=Arabidopsis thaliana OX=3702 GN=ATL4 PE=1 SV=1 | 0 | |
| TrEMBL | A0A175YIT6 | RING-type domain-containing protein OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_031018 PE=3 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 1.50095 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 1.472875 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 2.130994 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 1.810807 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 1.478828 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 1.112063 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 1.393025 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 1.421644 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 6.316545 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 7.384302 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 7.831095 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 8.668777 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 6.36901 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 4.241244 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 2.403028 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 2.060875 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 1.424042 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 1.239469 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 1.551831 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 0.498409 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 0.666583 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 1.354292 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 0.819276 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 0.600924 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 1.166819 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 1.780087 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 1.213941 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 1.305793 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 1.466848 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 0.544352 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 0.325189 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 0.895793 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 0.313066 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 2.586481 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 0.363523 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 0.456304 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 1.442818 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 0.877721 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 4.032817 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 0.763012 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 0.169811 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 0.132469 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 0.593614 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 1.027682 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 0.394712 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 0.57115 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 0.128915 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 3.285297 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 2.721212 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 2.512569 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 3 | jg1727, jg26757, jg29138 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_1276 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah023351 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg29100, Sbi_jg3318 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg6620 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00000127 |
| Amaranthaceae | Suaeda glauca | 3 | Sgl11459, Sgl16837, Sgl16852 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000014423, gene:ENSEOMG00000036054 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.1AG0007810, CQ.Regalona.r1.2BG0021720 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30001240 |
| Apiaceae | Apium graveolens | 2 | Ag1G01406, Ag5G01220 |
| Arecaceae | Cocos nucifera | 3 | COCNU_07G004420, COCNU_10G003090, scaffold003722G000010 |
| Arecaceae | Phoenix dactylifera | 3 | gene-LOC103696193, gene-LOC103704720, gene-LOC103710802 |
| Asteraceae | Flaveria trinervia | 3 | Ftri11G19409, Ftri12G15687, Ftri5G06280 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT3G60220.1 |
| Brassicaceae | Eutrema salsugineum | 2 | Thhalv10005706m.g.v1.0, Thhalv10006088m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp5g03000.v2.2 |
| Brassicaceae | Brassica nigra | 2 | BniB06g053710.2N, BniB08g074510.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq05G1008 |
| Casuarinaceae | Casuarina glauca | 2 | Cgl05G1006, Cgl05G1017 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno18g03320 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate08g08850 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG04.25 |
| Plantaginaceae | Plantago ovata | 2 | Pov_00016980, Pov_00032442 |
| Poaceae | Echinochloa crus-galli | 9 | AH01.2118, AH07.3044, AH09.2093, BH05.4035, BH07.2870 ... |
| Poaceae | Eleusine coracana subsp. coracana | 4 | gene-QOZ80_2AG0141400, gene-QOZ80_2BG0197000 ... |
| Poaceae | Hordeum vulgare | 2 | HORVU.MOREX.r3.2HG0196550.1.CDS1 ... |
| Poaceae | Lolium multiflorum | 3 | gene-QYE76_024502, gene-QYE76_024564, gene-QYE76_045850 |
| Poaceae | Oryza coarctata | 4 | Oco03G018510, Oco04G019260, Oco07G014300, Oco08G013810 |
| Poaceae | Oryza sativa | 3 | LOC_Os02g46340.1, LOC_Os03g20000.1, LOC_Os04g49700.1 |
| Poaceae | Paspalum vaginatum | 3 | gene-BS78_04G234700, gene-BS78_06G206600 ... |
| Poaceae | Sporobolus alterniflorus | 7 | Chr06G004830, Chr09G023180, Chr15G006340, Chr23G002980 ... |
| Poaceae | Thinopyrum elongatum | 2 | Tel2E01G769800, Tel6E01G486400 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC6AG040260, gene_TRIDC6BG047210 |
| Poaceae | Triticum aestivum | 6 | TraesCS2A02G453200.1.cds1, TraesCS2B02G474500.1.cds1 ... |
| Poaceae | Zea mays | 3 | Zm00001eb072640_P001, Zm00001eb251040_P001 ... |
| Poaceae | Zoysia japonica | 3 | nbis-gene-22223, nbis-gene-22688, nbis-gene-9096 |
| Poaceae | Zoysia macrostachya | 3 | Zma_g14159, Zma_g16903, Zma_g20323 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG19.655, evm.TU.LG24.643 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc07g05970 |
| Rhizophoraceae | Bruguiera sexangula | 2 | evm.TU.Scaffold_11_RagTag.34, evm.TU.Scaffold_18_RagTag.106 |
| Rhizophoraceae | Carallia pectinifolia | 1 | nbisL1-mrna-28441 |
| Rhizophoraceae | Ceriops tagal | 2 | nbisL1-mrna-19610, nbisL1-mrna-4889 |
| Rhizophoraceae | Ceriops zippeliana | 2 | nbisL1-mrna-14045, nbisL1-mrna-14516 |
| Rhizophoraceae | Kandelia candel | 2 | add.evm.TU.utg000005l.145, add.evm.TU.utg000034l.5 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00018783 |
| Rhizophoraceae | Rhizophora apiculata | 2 | nbisL1-mrna-16866, nbisL1-mrna-22795 |
| Rhizophoraceae | Rhizophora mangle | 2 | nbisL1-mrna-22087, nbisL1-mrna-22946 |
| Salicaceae | Populus euphratica | 1 | populus_peu31849 |
| Solanaceae | Lycium barbarum | 2 | gene-LOC132635123, gene-LOC132645842 |
| Solanaceae | Solanum chilense | 1 | SOLCI003659500 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107016175 |
| Tamaricaceae | Reaumuria soongarica | 1 | STRG.1027_chr01_- |
| Tamaricaceae | Tamarix chinensis | 1 | TC10G2517 |
| Zosteraceae | Zostera marina | 1 | Zosma06g05620.v3.1 |