Basic Information
Locus ID:
Ag1G00458
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
Ring finger domain
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr1 | 73238341 | 73244775 | + | Ag1G00458 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 5.41 | 31,135.66 Da | 53.66 | 71.64 | -0.44 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| Pfam | PF00097 | Zinc finger, C3HC4 type (RING finger) | 31 | 79 | 1.2E-7 | IPR018957 |
| SUPERFAMILY | SSF57850 | RING/U-box | 24 | 86 | 5.74E-12 | - |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 26 | 100 | 7.6E-13 | IPR013083 |
| SMART | SM00184 | ring_2 | 31 | 79 | 5.5E-4 | IPR001841 |
| ProSiteProfiles | PS50089 | Zinc finger RING-type profile. | 31 | 80 | 11.840146 | IPR001841 |
| ProSitePatterns | PS00518 | Zinc finger RING-type signature. | 47 | 56 | - | IPR017907 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 24 | - | - |
Gene Ontology
Molecular Function:
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT3G05250.1 | RING/U-box superfamily protein. | 0 |
| RefSeq | XP_017227343.1 | PREDICTED: uncharacterized protein LOC108203111 isoform X1 [Daucus carota subsp. sativus] | 0 |
| TrEMBL | A0A175YDU2 | RING-type domain-containing protein OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_029427 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 11.123564 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 6.59034 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 5.844109 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 6.520346 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 6.028722 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 5.141436 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 6.584225 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 7.41239 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 14.203549 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 13.951631 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 15.742167 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 15.33858 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 13.835146 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 13.104874 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 7.809118 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 8.630881 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 13.951275 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 9.656692 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 10.952917 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 11.925192 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 17.025379 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 27.088665 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 27.825615 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 23.525066 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 23.80827 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 11.851029 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 11.187668 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 15.848968 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 16.11639 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 10.323219 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 7.710297 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 6.17284 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 12.203096 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 17.005373 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 6.408132 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 8.706614 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 11.271431 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 10.065213 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 6.793326 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 5.111807 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 3.321862 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 20.350813 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 20.671267 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 23.694071 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 18.135012 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 22.470591 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 25.567001 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 13.712413 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 14.97474 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 14.062155 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 1 | jg26590 |
| Aizoaceae | Mesembryanthemum crystallinum | 2 | gene_10451, gene_24917 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah005822 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_4g081650 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg17041, Sbi_jg61590 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg317 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00008382 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl24570, Sgl29734 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000009509, gene:ENSEOMG00000029771 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.4AG0008840, CQ.Regalona.r1.4BG0008950 |
| Anacardiaceae | Pistacia vera | 6 | pistato.v30084940, pistato.v30085240, pistato.v30085270 ... |
| Apiaceae | Apium graveolens | 1 | Ag1G00458 |
| Arecaceae | Cocos nucifera | 1 | COCNU_04G007550 |
| Arecaceae | Phoenix dactylifera | 1 | gene-LOC103708012 |
| Asparagaceae | Asparagus officinalis | 3 | AsparagusV1_07.1560.V1.1, AsparagusV1_Unassigned.678.V1.1 ... |
| Asteraceae | Flaveria trinervia | 1 | Ftri6G33338 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT3G05250.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10021312m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp3g04100.v2.2 |
| Brassicaceae | Brassica nigra | 1 | BniB01g058320.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq06G1229 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl06G1282 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno05g05490 |
| Dunaliellaceae | Dunaliella salina | 1 | Dusal.0181s00014.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate06g22500 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG03.2409 |
| Plumbaginaceae | Limonium bicolor | 1 | Lb1G06717 |
| Poaceae | Echinochloa crus-galli | 3 | AH01.316, BH01.408, CH01.261 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_3AG0211320, gene-QOZ80_3BG0256470 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.5HG0523040.1 |
| Poaceae | Lolium multiflorum | 1 | gene-QYE76_060948 |
| Poaceae | Oryza coarctata | 2 | Oco05G026820, Oco06G027810 |
| Poaceae | Oryza sativa | 1 | LOC_Os03g59540.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_01G039300 |
| Poaceae | Puccinellia tenuiflora | 2 | Pt_Chr0105644, Pt_Chr0105670 |
| Poaceae | Sporobolus alterniflorus | 2 | Chr04G031060, Chr07G030110 |
| Poaceae | Thinopyrum elongatum | 2 | Tel3E01G644500, Tel5E01G726800 |
| Poaceae | Triticum dicoccoides | 3 | gene_TRIDC3AG057710, gene_TRIDC5AG066080 ... |
| Poaceae | Triticum aestivum | 4 | TraesCS3D02G400900.1.cds1, TraesCS5A02G460200.1 ... |
| Poaceae | Zea mays | 2 | Zm00001eb079450_P001, Zm00001eb212380_P001 |
| Poaceae | Zoysia japonica | 1 | nbis-gene-16547 |
| Poaceae | Zoysia macrostachya | 1 | Zma_g2522 |
| Portulacaceae | Portulaca oleracea | 3 | evm.TU.LG08.629, evm.TU.LG13.1405, evm.TU.LG22.1223 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc01g11450 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_1_RagTag.160 |
| Rhizophoraceae | Carallia pectinifolia | 1 | nbisL1-mrna-8093 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-5103 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-5237 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000012l.117 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00011074 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-7842 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-147 |
| Salicaceae | Populus euphratica | 1 | populus_peu13429 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132645884 |
| Solanaceae | Solanum chilense | 1 | SOLCI000021400 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107012794 |
| Tamaricaceae | Reaumuria soongarica | 1 | STRG.24452_chr08_+ |
| Tamaricaceae | Tamarix chinensis | 1 | TC05G2330 |
| Zosteraceae | Zostera marina | 1 | Zosma03g17060.v3.1 |