Basic Information
Locus ID:
Ag9G01947
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
RING-like zinc finger
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr9 | 240516736 | 240518152 | - | Ag9G01947 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 6.57 | 17,277.75 Da | 60.73 | 78.42 | -0.22 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| Pfam | PF13639 | Ring finger domain | 78 | 120 | 1.9E-10 | IPR001841 |
| SUPERFAMILY | SSF57850 | RING/U-box | 59 | 126 | 6.06E-20 | - |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 50 | 125 | 2.3E-17 | IPR013083 |
| SMART | SM00184 | ring_2 | 78 | 119 | 7.8E-5 | IPR001841 |
| ProSiteProfiles | PS50089 | Zinc finger RING-type profile. | 78 | 120 | 12.046688 | IPR001841 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 134 | 158 | - | - |
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT4G24015.1 | RING/U-box superfamily protein. | 0 |
| RefSeq | XP_017225706.1 | PREDICTED: probable E3 ubiquitin-protein ligase RHA4A [Daucus carota subsp. sativus] | 0 |
| Q84TF5 | Probable E3 ubiquitin-protein ligase RHA4A OS=Arabidopsis thaliana OX=3702 GN=RHA4A PE=2 SV=1 | 0 | |
| TrEMBL | A0A175YI19 | RING-type domain-containing protein OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_030429 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 0 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 0 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 0 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 0 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 0 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 0 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 0 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 0 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 0 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 0 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 0 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 0 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 0 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 0 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 0 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 0 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 0 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 0 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 0 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 0 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 0 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 0.602187 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 0 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 0 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 0 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 0 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 0 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 0 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 0 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 0 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 0 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 0 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 0 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 0.387922 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 0 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 0 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 0 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 0 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 0 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 0 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 0 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 0 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 0 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 0 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 0 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 0 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 0 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 0 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 0 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 0 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 2 | jg12298, jg28144 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_2247 |
| Amaranthaceae | Atriplex hortensis | 2 | Ah003932, Ah024020 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_1g009800 |
| Amaranthaceae | Salicornia bigelovii | 4 | Sbi_jg24077, Sbi_jg28504, Sbi_jg2854, Sbi_jg7919 |
| Amaranthaceae | Salicornia europaea | 2 | Seu_jg12119, Seu_jg7049 |
| Amaranthaceae | Suaeda aralocaspica | 2 | GOSA_00010680, GOSA_00022067 |
| Amaranthaceae | Suaeda glauca | 5 | Sgl11724, Sgl11883, Sgl17212, Sgl52285, Sgl57532 |
| Amaranthaceae | Chenopodium album | 5 | gene:ENSEOMG00000007303, gene:ENSEOMG00000013446 ... |
| Amaranthaceae | Chenopodium quinoa | 5 | CQ.Regalona.r1.1AG0012470, CQ.Regalona.r1.1BG0013560 ... |
| Anacardiaceae | Pistacia vera | 3 | pistato.v30033040, pistato.v30033090, pistato.v30134020 |
| Apiaceae | Apium graveolens | 4 | Ag1G02042, Ag4G00657, Ag9G01947, Ag9G01948 |
| Arecaceae | Cocos nucifera | 1 | COCNU_02G011860 |
| Arecaceae | Phoenix dactylifera | 1 | gene-LOC103711072 |
| Asparagaceae | Asparagus officinalis | 2 | AsparagusV1_02.590.V1.1, AsparagusV1_09.327.V1.1 |
| Asteraceae | Flaveria trinervia | 3 | Ftri16G06872, Ftri16G11474, Ftri2G16641 |
| Brassicaceae | Arabidopsis thaliana | 4 | AT1G33480.1, AT4G10150.1, AT4G10160.1, AT4G24015.1 |
| Brassicaceae | Eutrema salsugineum | 3 | Thhalv10009296m.g.v1.0, Thhalv10026391m.g.v1.0 ... |
| Brassicaceae | Schrenkiella parvula | 3 | Sp1g28930.v2.2, Sp6g07260.v2.2, Sp7g21970.v2.2 |
| Brassicaceae | Brassica nigra | 4 | BniB02g080910.2N, BniB05g013220.2N, BniB05g058700.2N ... |
| Casuarinaceae | Casuarina equisetifolia | 2 | Ceq02G1646, Ceq03G0600 |
| Casuarinaceae | Casuarina glauca | 3 | Cgl03G0702, Cgl04G2772, Cgl04G2774 |
| Cymodoceaceae | Cymodocea nodosa | 2 | gene.Cymno07g02100, gene.Cymno08g06440 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate05g08990 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 1 | nbisL1-mrna-5328 |
| Nitrariaceae | Nitraria sibirica | 2 | evm.TU.LG06.1262, evm.TU.LG10.1569 |
| Plantaginaceae | Plantago ovata | 2 | Pov_00021979, Pov_00026334 |
| Plumbaginaceae | Limonium bicolor | 1 | Lb4G24716 |
| Poaceae | Echinochloa crus-galli | 3 | AH07.2219, BH07.2164, CH07.2097 |
| Poaceae | Eleusine coracana subsp. coracana | 1 | gene-QOZ80_2AG0134090 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.6HG0588350.1 |
| Poaceae | Lolium multiflorum | 1 | gene-QYE76_023084 |
| Poaceae | Oryza coarctata | 2 | Oco03G012670, Oco04G013700 |
| Poaceae | Oryza sativa | 1 | LOC_Os02g35144.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_04G163300 |
| Poaceae | Puccinellia tenuiflora | 1 | Pt_Chr0204210 |
| Poaceae | Sporobolus alterniflorus | 5 | Chr06G009790, Chr09G014170, Chr13G010060, Chr13G010110 ... |
| Poaceae | Thinopyrum elongatum | 1 | Tel6E01G390700 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC6AG031500, gene_TRIDC6BG037670 |
| Poaceae | Triticum aestivum | 2 | TraesCS6B02G225000.1, TraesCS6D02G187600.1 |
| Poaceae | Zea mays | 1 | Zm00001eb243920_P001 |
| Poaceae | Zoysia japonica | 1 | nbis-gene-20728 |
| Poaceae | Zoysia macrostachya | 2 | Zma_g13701, Zma_g16481 |
| Portulacaceae | Portulaca oleracea | 4 | evm.TU.LG04.3247, evm.TU.LG10.139, evm.TU.LG16.350 ... |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc05g17280 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_16_RagTag.59 |
| Rhizophoraceae | Carallia pectinifolia | 1 | nbisL1-mrna-22308 |
| Rhizophoraceae | Ceriops tagal | 2 | nbisL1-mrna-13524, nbisL1-mrna-4350 |
| Rhizophoraceae | Ceriops zippeliana | 2 | nbisL1-mrna-13332, nbisL1-mrna-20423 |
| Rhizophoraceae | Kandelia candel | 2 | evm.TU.utg000002l.262, evm.TU.utg000022l.461 |
| Rhizophoraceae | Kandelia obovata | 2 | Maker00011769, Maker00014206 |
| Rhizophoraceae | Rhizophora apiculata | 2 | nbisL1-mrna-3600, nbisL1-mrna-9040 |
| Rhizophoraceae | Rhizophora mangle | 2 | nbisL1-mrna-18577, nbisL1-mrna-6786 |
| Salicaceae | Populus euphratica | 3 | populus_peu03717, populus_peu16456, populus_peu34562 |
| Solanaceae | Lycium barbarum | 3 | gene-LOC132606188, gene-LOC132634760, gene-LOC132644791 |
| Solanaceae | Solanum chilense | 1 | SOLCI006778300 |
| Solanaceae | Solanum pennellii | 2 | gene-LOC107020983, gene-LOC107027257 |
| Tamaricaceae | Reaumuria soongarica | 1 | gene_14432 |
| Tamaricaceae | Tamarix chinensis | 1 | TC01G3104 |
| Zosteraceae | Zostera marina | 1 | Zosma02g04280.v3.1 |