Basic Information
Locus ID:
AgUnG00417
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
zinc finger
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| ctg3005 | 30468 | 34978 | - | AgUnG00417 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 8.82 | 37,975.71 Da | 51.18 | 69.27 | -0.62 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| Pfam | PF13639 | Ring finger domain | 293 | 335 | 3.7E-12 | IPR001841 |
| SUPERFAMILY | SSF57850 | RING/U-box | 276 | 339 | 2.59E-19 | - |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 260 | 340 | 1.3E-17 | IPR013083 |
| SMART | SM00184 | ring_2 | 294 | 334 | 9.9E-7 | IPR001841 |
| ProSiteProfiles | PS50089 | Zinc finger RING-type profile. | 294 | 335 | 12.489278 | IPR001841 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 15 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 26 | - | - |
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT1G73760.1 | RING/U-box superfamily protein. | 0 |
| RefSeq | XP_017243989.1 | PREDICTED: uncharacterized protein LOC108215889 isoform X2 [Daucus carota subsp. sativus] | 0 |
| Q9FMM4 | Probable E3 ubiquitin-protein ligase RHG1A OS=Arabidopsis thaliana OX=3702 GN=RHG1A PE=2 SV=1 | 0 | |
| TrEMBL | A0A6L5BA08 | RING-type domain-containing protein OS=Apium graveolens OX=4045 GN=AG4045_028098 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 3.882543 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 6.909615 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 9.138678 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 9.752611 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 10.308271 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 10.504453 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 7.219724 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 7.702546 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 28.866602 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 26.581085 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 27.356298 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 21.89452 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 21.99807 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 17.013287 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 14.720027 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 13.896572 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 15.615579 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 16.333601 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 12.643364 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 19.282587 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 21.522606 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 27.340603 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 25.699717 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 30.008745 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 25.01388 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 15.777038 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 14.79755 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 11.320742 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 17.086481 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 8.853906 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 9.479514 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 5.54468 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 10.43284 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 8.758749 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 15.029238 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 8.854117 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 8.478229 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 9.891929 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 11.648209 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 16.312799 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 8.226403 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 21.71084 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 17.766472 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 9.983117 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 8.186431 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 16.397943 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 14.078423 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 13.505526 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 11.390738 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 10.622046 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 6 | jg18854, jg19326, jg19339, jg26988, jg5233, jg7284 |
| Aizoaceae | Mesembryanthemum crystallinum | 3 | gene_19958, gene_20555, gene_26572 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah002336 |
| Amaranthaceae | Salicornia bigelovii | 3 | Sbi_jg32117, Sbi_jg46130, Sbi_jg57255 |
| Amaranthaceae | Salicornia europaea | 2 | Seu_jg21283, Seu_jg24997 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00021800 |
| Amaranthaceae | Suaeda glauca | 3 | Sgl53925, Sgl55733, Sgl59254 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000004544, gene:ENSEOMG00000022429 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.5AG0015200, CQ.Regalona.r1.5BG0016370 |
| Anacardiaceae | Pistacia vera | 2 | pistato.v30146950, pistato.v30206160 |
| Apiaceae | Apium graveolens | 2 | Ag7G01222, AgUnG00417 |
| Arecaceae | Cocos nucifera | 2 | COCNU_06G008940, COCNU_14G005950 |
| Arecaceae | Phoenix dactylifera | 2 | gene-LOC103709314, gene-LOC103721561 |
| Asparagaceae | Asparagus officinalis | 2 | AsparagusV1_01.3160.V1.1, AsparagusV1_05.1109.V1.1 |
| Asteraceae | Flaveria trinervia | 7 | Ftri11G27636, Ftri15G03187, Ftri15G33113, Ftri17G20886 ... |
| Brassicaceae | Arabidopsis thaliana | 2 | AT1G17970.1, AT1G73760.1 |
| Brassicaceae | Eutrema salsugineum | 3 | Thhalv10007935m.g.v1.0, Thhalv10018747m.g.v1.0 ... |
| Brassicaceae | Schrenkiella parvula | 2 | Sp1g16030.v2.2, Sp5g28950.v2.2 |
| Brassicaceae | Brassica nigra | 3 | BniB03g007390.2N, BniB03g038730.2N, BniB03g052150.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq03G2449 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl03G2593 |
| Cymodoceaceae | Cymodocea nodosa | 2 | gene.Cymno09g09040, gene.Cymno11g01540 |
| Hydrocharitaceae | Thalassia testudinum | 2 | gene.Thate01g27510, gene.Thate03g00810 |
| Nitrariaceae | Nitraria sibirica | 2 | evm.TU.LG09.50, evm.TU.LG10.295 |
| Plantaginaceae | Plantago ovata | 2 | Pov_00000801, Pov_00033297 |
| Plumbaginaceae | Limonium bicolor | 3 | Lb3G16374, Lb3G16375, Lb8G36582 |
| Poaceae | Echinochloa crus-galli | 5 | AH02.2827, BH02.2924, BH05.1669, CH02.3623, CH05.1889 |
| Poaceae | Eleusine coracana subsp. coracana | 4 | gene-QOZ80_1AG0029400, gene-QOZ80_1BG0079570 ... |
| Poaceae | Hordeum vulgare | 2 | HORVU.MOREX.r3.1HG0083630.1, HORVU.MOREX.r3.3HG0281540.1 |
| Poaceae | Lolium multiflorum | 2 | gene-QYE76_015605, gene-QYE76_054691 |
| Poaceae | Oryza coarctata | 3 | Oco01G017890, Oco02G018070, Oco09G015990 |
| Poaceae | Oryza sativa | 2 | LOC_Os01g49770.1, LOC_Os05g47670.1 |
| Poaceae | Paspalum vaginatum | 3 | gene-BS78_03G240100, gene-BS78_09G215900 ... |
| Poaceae | Puccinellia tenuiflora | 2 | Pt_Chr0503717, Pt_Chr0602431 |
| Poaceae | Sporobolus alterniflorus | 7 | Chr01G015150, Chr02G012130, Chr03G013970, Chr05G021500 ... |
| Poaceae | Thinopyrum elongatum | 3 | Tel1E01G610200, Tel3E01G434900, Tel7E01G398600 |
| Poaceae | Triticum dicoccoides | 7 | gene_TRIDC1AG054910, gene_TRIDC1BG062890 ... |
| Poaceae | Triticum aestivum | 6 | TraesCS1A02G373200.1, TraesCS1B02G393400.2 ... |
| Poaceae | Zea mays | 3 | Zm00001eb156060_P001, Zm00001eb294850_P003 ... |
| Poaceae | Zoysia japonica | 4 | nbis-gene-12626, nbis-gene-13756, nbis-gene-24950 ... |
| Poaceae | Zoysia macrostachya | 4 | Zma_g10934, Zma_g27325, Zma_g28732, Zma_g8466 |
| Portulacaceae | Portulaca oleracea | 4 | evm.TU.LG01.2276, evm.TU.LG08.870, evm.TU.LG14.1451 ... |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc04g02530 |
| Rhizophoraceae | Bruguiera sexangula | 2 | evm.TU.Scaffold_11_RagTag.700, evm.TU.Scaffold_4_RagTag.733 |
| Rhizophoraceae | Carallia pectinifolia | 4 | nbisL1-mrna-13156, nbisL1-mrna-14325, nbisL1-mrna-25569 ... |
| Rhizophoraceae | Ceriops tagal | 2 | nbisL1-mrna-13649, nbisL1-mrna-4654 |
| Rhizophoraceae | Ceriops zippeliana | 2 | nbisL1-mrna-12312, nbisL1-mrna-1636 |
| Rhizophoraceae | Kandelia candel | 2 | evm.TU.utg000005l.14, evm.TU.utg000008l.475 |
| Rhizophoraceae | Kandelia obovata | 2 | Maker00001479, Maker00009034 |
| Rhizophoraceae | Rhizophora apiculata | 2 | nbisL1-mrna-14428, nbisL1-mrna-965 |
| Rhizophoraceae | Rhizophora mangle | 2 | nbisL1-mrna-19228, nbisL1-mrna-8368 |
| Salicaceae | Populus euphratica | 3 | populus_peu28301, populus_peu28464, populus_peu29756 |
| Solanaceae | Lycium barbarum | 6 | gene-LOC132601760, gene-LOC132603574, gene-LOC132615717 ... |
| Solanaceae | Solanum chilense | 3 | SOLCI003850200, SOLCI004339800, SOLCI006090600 |
| Solanaceae | Solanum pennellii | 9 | gene-LOC107005815, gene-LOC107005845, gene-LOC107006294 ... |
| Tamaricaceae | Reaumuria soongarica | 1 | gene_11670 |
| Tamaricaceae | Tamarix chinensis | 1 | TC05G1091 |
| Zosteraceae | Zostera marina | 2 | Zosma03g01230.v3.1, Zosma06g06680.v3.1 |