Basic Information
Locus ID:
Ag11G04062
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 |
|---|---|---|---|---|
| chr11 | 133943700 | 133972526 | - | Ag11G04062 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 6.11 | 219,498.91 Da | 48.25 | 96.54 | -0.03 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd16491 | RING-CH-C4HC3_LTN1 | 1903 | 1952 | 8.68299E-33 | IPR039804 |
| Pfam | PF13639 | Ring finger domain | 1904 | 1952 | 2.5E-7 | IPR001841 |
| SUPERFAMILY | SSF57850 | RING/U-box | 1904 | 1955 | 1.33E-12 | - |
| SUPERFAMILY | SSF48371 | ARM repeat | 159 | 780 | 5.76E-17 | IPR016024 |
| Gene3D | G3DSA:1.25.10.10 | - | 145 | 444 | 2.1E-9 | IPR011989 |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 1883 | 1955 | 3.9E-10 | IPR013083 |
| SMART | SM00184 | ring_2 | 1905 | 1951 | 2.1E-4 | IPR001841 |
| SMART | SM00744 | ringv_2 | 1904 | 1952 | 0.0019 | IPR011016 |
| ProSiteProfiles | PS50089 | Zinc finger RING-type profile. | 1905 | 1952 | 12.223724 | IPR001841 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 8 | 28 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 8 | 54 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 91 | 113 | - | - |
Gene Ontology
Molecular Function:
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT5G58410.2 | - | 0 |
| RefSeq | XP_017252267.1 | PREDICTED: E3 ubiquitin-protein ligase listerin isoform X2 [Daucus carota subsp. sativus] | 0 |
| Q9FGI1 | E3 ubiquitin-protein ligase listerin OS=Arabidopsis thaliana OX=3702 GN=At5g58410 PE=3 SV=1 | 0 | |
| TrEMBL | A0A164Z661 | E3 ubiquitin-protein ligase listerin OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_018643 PE=3 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 9.035489 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 6.177159 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 6.896939 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 6.91938 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 8.616709 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 10.20006 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 8.682733 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 7.533701 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 13.063554 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 14.643865 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 15.427271 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 13.834712 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 16.086023 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 10.564039 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 4.269133 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 5.504573 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 4.497985 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 6.540176 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 5.5442 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 6.165023 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 7.355352 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 6.00791 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 6.686484 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 5.592812 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 6.090866 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 8.659088 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 7.144455 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 6.336815 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 8.149413 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 2.357657 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 3.320392 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 2.320976 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 5.424718 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 4.428722 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 4.868429 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 3.980014 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 2.388348 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 2.783111 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 9.430202 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 6.886615 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 4.241407 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 9.791704 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 9.89887 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 22.012503 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 17.08518 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 8.929316 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 15.3141 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 6.410974 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 6.176282 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 5.857567 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 1 | jg8399 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_9243 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah015016 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_8g190980 |
| Amaranthaceae | Salicornia bigelovii | 3 | Sbi_jg24730, Sbi_jg8592, Sbi_jg8593 |
| Amaranthaceae | Salicornia europaea | 2 | Seu_jg20013, Seu_jg21641 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00022678 |
| Amaranthaceae | Suaeda glauca | 4 | Sgl40720, Sgl42720, Sgl42721, Sgl47456 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000010868, gene:ENSEOMG00000032293 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.8AG0016740, CQ.Regalona.r1.8BG0017770 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30292460 |
| Apiaceae | Apium graveolens | 1 | Ag11G04062 |
| Arecaceae | Cocos nucifera | 1 | COCNU_04G013000 |
| Arecaceae | Phoenix dactylifera | 1 | gene-LOC103702083 |
| Asparagaceae | Asparagus officinalis | 1 | AsparagusV1_07.642.V1.1 |
| Asteraceae | Flaveria trinervia | 1 | Ftri15G24248 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT5G58410.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10012416m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp6g20090.v2.2 |
| Brassicaceae | Brassica nigra | 2 | BniB02g037790.2N, BniB08g013230.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq08G1791 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl08G1852 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno04g14500 |
| Dunaliellaceae | Dunaliella salina | 1 | Dusal.0170s00002.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate01g31830 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG01.601 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00016389 |
| Plumbaginaceae | Limonium bicolor | 1 | Lb2G14813 |
| Poaceae | Echinochloa crus-galli | 6 | AH04.230, AH05.148, BH04.224, BH05.173, CH04.241, CH05.227 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.5HG0536080.1 |
| Poaceae | Lolium multiflorum | 1 | gene-QYE76_006933 |
| Poaceae | Oryza coarctata | 3 | Oco02G032550, Oco06G000010, Oco06G000020 |
| Poaceae | Oryza sativa | 1 | LOC_Os01g74610.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_05G038000 |
| Poaceae | Puccinellia tenuiflora | 2 | Pt_Chr0700176, Pt_Chr0700363 |
| Poaceae | Sporobolus alterniflorus | 2 | Chr07G021640, Chr31G000700 |
| Poaceae | Thinopyrum elongatum | 4 | Tel3E01G916900, Tel3E01G917000, Tel5E01G875100 ... |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC4AG048770, gene_TRIDC5BG082160 |
| Poaceae | Triticum aestivum | 3 | TraesCS4A02G322600.1, TraesCS5B02G555800.1 ... |
| Poaceae | Zea mays | 1 | Zm00001eb093280_P001 |
| Poaceae | Zoysia japonica | 2 | nbis-gene-46397, nbis-gene-55467 |
| Poaceae | Zoysia macrostachya | 1 | Zma_g25476 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG02.2518, evm.TU.LG23.743 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc01g34080 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_13_RagTag.641 |
| Rhizophoraceae | Carallia pectinifolia | 1 | nbisL1-mrna-30424 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-17396 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-16025 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000015l.362 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00015462 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-4284 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-15150 |
| Salicaceae | Populus euphratica | 1 | populus_peu18578 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132634871 |
| Solanaceae | Solanum chilense | 1 | SOLCI007368000 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107031066 |
| Tamaricaceae | Reaumuria soongarica | 1 | gene_2613 |
| Tamaricaceae | Tamarix chinensis | 1 | TC11G0009 |
| Zosteraceae | Zostera marina | 1 | Zosma02g21930.v3.1 |