Basic Information
Locus ID:
Ag3G02706
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
RING-H2 zinc finger domain
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr3 | 293114391 | 293115831 | - | Ag3G02706 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 8.46 | 31,024.93 Da | 46.03 | 102.02 | 0.15 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| Pfam | PF13639 | Ring finger domain | 204 | 247 | 1.5E-11 | IPR001841 |
| SUPERFAMILY | SSF57850 | RING/U-box | 205 | 252 | 3.76E-19 | - |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 176 | 253 | 5.9E-18 | IPR013083 |
| SMART | SM00184 | ring_2 | 206 | 246 | 4.7E-5 | IPR001841 |
| ProSiteProfiles | PS50089 | Zinc finger RING-type profile. | 206 | 247 | 12.164712 | IPR001841 |
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT5G02750.1 | RING/U-box superfamily protein. | 0 |
| RefSeq | XP_017228283.1 | PREDICTED: E3 ubiquitin-protein ligase SGR9, amyloplastic-like [Daucus carota subsp. sativus] | 0 |
| Q8GXF8 | E3 ubiquitin-protein ligase SGR9, amyloplastic OS=Arabidopsis thaliana OX=3702 GN=SGR9 PE=1 SV=1 | 0 | |
| TrEMBL | A0A165WUU1 | RING-type domain-containing protein OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_000454 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 4.698296 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 4.768736 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 2.184735 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 4.492956 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 4.005198 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 4.891286 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 1.209028 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 0.37307 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 10.213511 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 10.435265 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 12.034222 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 10.848839 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 13.771048 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 16.968342 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 1.237068 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 0.799713 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 2.666975 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 8.258107 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 6.80275 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 4.738157 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 5.818237 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 2.285381 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 1.75409 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 3.435191 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 4.135285 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 9.312235 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 6.470853 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 5.176962 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 6.377285 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 19.530872 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 22.479013 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 21.01416 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 37.004467 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 11.3268 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 34.746101 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 23.498068 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 26.528944 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 27.294125 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 4.199049 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 12.752381 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 11.31179 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 0.354482 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 0.241877 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 2.948725 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 1.744284 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 0.419862 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 1.003126 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 0.296432 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 0.307199 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 0.554821 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 2 | jg32077, jg32594 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_4601 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah015240 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_7g162370 |
| Amaranthaceae | Salicornia bigelovii | 1 | Sbi_jg8476 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg20115 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00014710 |
| Amaranthaceae | Suaeda glauca | 3 | Sgl42881, Sgl47648, Sgl47671 |
| Amaranthaceae | Chenopodium album | 1 | gene:ENSEOMG00000008941 |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.8AG0015150, CQ.Regalona.r1.8BG0016470 |
| Anacardiaceae | Pistacia vera | 2 | pistato.v30271610, pistato.v30272040 |
| Apiaceae | Apium graveolens | 1 | Ag3G02706 |
| Arecaceae | Cocos nucifera | 2 | COCNU_01G016880, scaffold008687G000020 |
| Arecaceae | Phoenix dactylifera | 1 | gene-LOC103710972 |
| Asparagaceae | Asparagus officinalis | 1 | AsparagusV1_07.1471.V1.1 |
| Asteraceae | Flaveria trinervia | 1 | Ftri16G18219 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT5G02750.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10014308m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp6g39830.v2.2 |
| Brassicaceae | Brassica nigra | 2 | BniB02g057490.2N, BniB05g031020.2N |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno05g05040 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate02g07370 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 1 | nbisL1-mrna-5923 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG01.1341 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00006365 |
| Poaceae | Echinochloa crus-galli | 3 | AH05.2495, BH05.2577, CH05.2687 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_5AG0373490, gene-QOZ80_5BG0422770 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.1HG0062490.1.CDS1 |
| Poaceae | Lolium multiflorum | 2 | gene-QYE76_013347, gene-QYE76_048232 |
| Poaceae | Oryza coarctata | 2 | Oco09G009010, Oco10G009590 |
| Poaceae | Oryza sativa | 1 | LOC_Os05g33830.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_09G142000 |
| Poaceae | Sporobolus alterniflorus | 2 | Chr01G020700, Chr12G017320 |
| Poaceae | Thinopyrum elongatum | 1 | Tel1E01G423500 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC1AG038190, gene_TRIDC1BG043440 |
| Poaceae | Triticum aestivum | 3 | TraesCS1A02G255600.1.cds1, TraesCS1B02G266300.1.cds1 ... |
| Poaceae | Zea mays | 1 | Zm00001eb349550_P001 |
| Poaceae | Zoysia japonica | 1 | nbis-gene-23845 |
| Poaceae | Zoysia macrostachya | 1 | Zma_g28231 |
| Portulacaceae | Portulaca oleracea | 3 | evm.TU.LG07.411, evm.TU.LG13.1290, evm.TU.LG21.917 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc01g10600 |
| Rhizophoraceae | Bruguiera sexangula | 2 | evm.TU.Scaffold_1_RagTag.1612, evm.TU.Scaffold_2_RagTag.817 |
| Rhizophoraceae | Carallia pectinifolia | 3 | nbisL1-mrna-4375, nbisL1-mrna-5318, nbisL1-mrna-5415 |
| Rhizophoraceae | Ceriops tagal | 2 | nbisL1-mrna-18768, nbisL1-mrna-4605 |
| Rhizophoraceae | Ceriops zippeliana | 2 | nbisL1-mrna-3860, nbisL1-mrna-9941 |
| Rhizophoraceae | Kandelia candel | 2 | add.evm.TU.utg000009l.322, add.evm.TU.utg000016l.239 |
| Rhizophoraceae | Kandelia obovata | 2 | Maker00005748, Maker00016305 |
| Rhizophoraceae | Rhizophora apiculata | 2 | nbisL1-mrna-18771, nbisL1-mrna-21863 |
| Rhizophoraceae | Rhizophora mangle | 2 | nbisL1-mrna-473, nbisL1-mrna-5905 |
| Salicaceae | Populus euphratica | 2 | populus_peu12537, populus_peu25821 |
| Solanaceae | Lycium barbarum | 2 | gene-LOC132605400, gene-LOC132630132 |
| Solanaceae | Solanum chilense | 2 | SOLCI002775100, SOLCI004731500 |
| Solanaceae | Solanum pennellii | 2 | gene-LOC107029814, gene-LOC107032316 |
| Tamaricaceae | Reaumuria soongarica | 1 | STRG.2926_chr01_- |
| Tamaricaceae | Tamarix chinensis | 1 | TC07G0590 |
| Zosteraceae | Zostera marina | 1 | Zosma02g25540.v3.1 |