Basic Information
Locus ID:
Ag3G01898
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
RING-type E3 ubiquitin transferase
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr3 | 166113833 | 166115387 | + | Ag3G01898 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 8.72 | 46,938.01 Da | 48.41 | 104.87 | 0.08 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd16664 | RING-Ubox_PUB | 16 | 58 | 1.28065E-22 | - |
| Pfam | PF04564 | U-box domain | 12 | 79 | 2.2E-17 | IPR003613 |
| SUPERFAMILY | SSF48371 | ARM repeat | 111 | 399 | 1.01E-15 | IPR016024 |
| SUPERFAMILY | SSF57850 | RING/U-box | 4 | 78 | 2.96E-24 | - |
| Gene3D | G3DSA:1.25.10.10 | - | 104 | 410 | 6.6E-14 | IPR011989 |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 11 | 83 | 4.3E-24 | IPR013083 |
| SMART | SM00504 | Ubox_2 | 15 | 78 | 2.4E-24 | IPR003613 |
| ProSiteProfiles | PS51698 | U-box domain profile. | 11 | 85 | 31.218241 | IPR003613 |
Gene Ontology
Biological Process:
Molecular Function:
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT5G09800.1 | ARM repeat superfamily protein. | 0 |
| RefSeq | XP_017244665.1 | PREDICTED: U-box domain-containing protein 28-like [Daucus carota subsp. sativus] | 0 |
| Q9LXE3 | U-box domain-containing protein 28 OS=Arabidopsis thaliana OX=3702 GN=PUB28 PE=1 SV=1 | 0 | |
| TrEMBL | A0A165XJ07 | RING-type E3 ubiquitin transferase OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_014421 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 4.039217 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 7.084911 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 3.062504 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 4.398362 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 6.179594 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 1.528826 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 1.607324 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 1.205295 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 4.572309 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 6.608526 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 5.154576 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 4.032616 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 2.918695 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 2.555387 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 3.00641 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 4.822868 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 2.283482 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 5.702366 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 3.270944 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 5.274608 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 5.59205 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 3.347195 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 4.476624 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 3.30381 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 4.362495 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 3.547122 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 3.135495 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 2.715926 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 3.002671 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 0.512697 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 0.716703 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 0.664734 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 4.016832 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 4.165172 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 7.036829 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 2.992008 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 1.490077 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 1.85488 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 5.117692 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 3.129816 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 0.698906 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 30.066059 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 9.281779 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 2.975869 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 3.422131 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 31.195297 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 6.486199 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 9.702585 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 5.187944 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 4.275864 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 6 | jg10603, jg11622, jg17170, jg21316, jg23069, jg39638 |
| Aizoaceae | Mesembryanthemum crystallinum | 2 | gene_22889, gene_25226 |
| Amaranthaceae | Atriplex hortensis | 2 | Ah024309, Ah027134 |
| Amaranthaceae | Beta vulgaris | 2 | BVRB_1g011130, BVRB_6g133060 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg13392, Sbi_jg52455 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg9389 |
| Amaranthaceae | Suaeda aralocaspica | 2 | GOSA_00013399, GOSA_00021056 |
| Amaranthaceae | Suaeda glauca | 6 | Sgl10208, Sgl15410, Sgl15444, Sgl33729, Sgl39040, Sgl39061 |
| Amaranthaceae | Chenopodium album | 5 | gene:ENSEOMG00000002372, gene:ENSEOMG00000003771 ... |
| Amaranthaceae | Chenopodium quinoa | 4 | CQ.Regalona.r1.1AG0014140, CQ.Regalona.r1.1BG0011910 ... |
| Apiaceae | Apium graveolens | 4 | Ag3G01898, Ag7G02096, Ag7G02215, AgUnG01277 |
| Arecaceae | Cocos nucifera | 4 | COCNU_15G001160, COCNU_15G001170, contig69548405G000010 ... |
| Arecaceae | Phoenix dactylifera | 3 | gene-LOC103703158, gene-LOC103704330, gene-LOC103714301 |
| Asteraceae | Flaveria trinervia | 1 | Ftri16G25905 |
| Brassicaceae | Arabidopsis thaliana | 3 | AT3G18710.1, AT5G09800.1, AT5G64660.1 |
| Brassicaceae | Eutrema salsugineum | 2 | Thhalv10004299m.g.v1.0, Thhalv10020785m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 2 | Sp2g27720.v2.2, Sp3g16770.v2.2 |
| Brassicaceae | Brassica nigra | 4 | BniB01g045730.2N, BniB06g012950.2N, BniB07g030080.2N ... |
| Casuarinaceae | Casuarina equisetifolia | 2 | Ceq03G1952, Ceq06G1893 |
| Casuarinaceae | Casuarina glauca | 2 | Cgl03G2099, Cgl06G1968 |
| Cymodoceaceae | Cymodocea nodosa | 2 | gene.Cymno07g00980, gene.Cymno08g08210 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 2 | nbisL1-mrna-10198, nbisL1-mrna-5166 |
| Nitrariaceae | Nitraria sibirica | 2 | evm.TU.LG02.842, evm.TU.LG06.732 |
| Plantaginaceae | Plantago ovata | 2 | Pov_00020509, Pov_00036897 |
| Poaceae | Echinochloa crus-galli | 4 | AH07.2117, AH09.962, BH07.2077, CH07.1975 |
| Poaceae | Eleusine coracana subsp. coracana | 3 | gene-QOZ80_2AG0133240, gene-QOZ80_2BG0188770 ... |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.2HG0167460.1.CDS1 |
| Poaceae | Lolium multiflorum | 2 | gene-QYE76_022901, gene-QYE76_043918 |
| Poaceae | Oryza coarctata | 4 | Oco03G011930, Oco04G012370, Oco07G005430, Oco08G005540 |
| Poaceae | Oryza sativa | 2 | LOC_Os02g33680.1, LOC_Os04g34140.1 |
| Poaceae | Paspalum vaginatum | 2 | gene-BS78_04G156000, gene-BS78_06G090600 |
| Poaceae | Sporobolus alterniflorus | 6 | Chr06G010320, Chr09G014840, Chr13G010870, Chr15G011770 ... |
| Poaceae | Thinopyrum elongatum | 1 | Tel2E01G528900 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC2AG043280, gene_TRIDC2BG046090 |
| Poaceae | Triticum aestivum | 3 | TraesCS2A02G298600.1.cds1, TraesCS2B02G315100.1.cds1 ... |
| Poaceae | Zea mays | 4 | Zm00001eb181650_P001, Zm00001eb238130_P001 ... |
| Poaceae | Zoysia japonica | 2 | nbis-gene-20783, nbis-gene-7698 |
| Poaceae | Zoysia macrostachya | 2 | Zma_g13654, Zma_g21263 |
| Portulacaceae | Portulaca oleracea | 4 | evm.TU.LG01.1137, evm.TU.LG03.2450, evm.TU.LG14.478 ... |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc05g21160 |
| Rhizophoraceae | Bruguiera sexangula | 3 | evm.TU.Scaffold_3_RagTag.1002, evm.TU.Scaffold_6_RagTag.1556 ... |
| Rhizophoraceae | Carallia pectinifolia | 3 | nbisL1-mrna-1092, nbisL1-mrna-17616, nbisL1-mrna-18632 |
| Rhizophoraceae | Ceriops tagal | 3 | nbisL1-mrna-1094, nbisL1-mrna-19834, nbisL1-mrna-902 |
| Rhizophoraceae | Ceriops zippeliana | 3 | nbisL1-mrna-12209, nbisL1-mrna-13184, nbisL1-mrna-2278 |
| Rhizophoraceae | Kandelia candel | 3 | add.evm.TU.utg000002l.144, add.evm.TU.utg000011l.367 ... |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00011704 |
| Rhizophoraceae | Rhizophora apiculata | 2 | nbisL1-mrna-20296, nbisL1-mrna-22838 |
| Rhizophoraceae | Rhizophora mangle | 3 | nbisL1-mrna-1703, nbisL1-mrna-18414, nbisL1-mrna-18630 |
| Salicaceae | Populus euphratica | 4 | populus_peu13606, populus_peu14857, populus_peu22770 ... |
| Solanaceae | Lycium barbarum | 2 | gene-LOC132614985, gene-LOC132627287 |
| Solanaceae | Solanum chilense | 2 | SOLCI004764100, SOLCI006131800 |
| Solanaceae | Solanum pennellii | 2 | gene-LOC107003332, gene-LOC107016055 |
| Tamaricaceae | Reaumuria soongarica | 2 | gene_10305, gene_1572 |
| Tamaricaceae | Tamarix chinensis | 2 | TC03G2852, TC04G0489 |
| Zosteraceae | Zostera marina | 1 | Zosma04g23730.v3.1 |