Basic Information
Locus ID:
Ag7G01970
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
RING-type zinc-finger
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr7 | 237060996 | 237062926 | + | Ag7G01970 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 9.84 | 39,303.21 Da | 79.12 | 69.42 | -0.86 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| Pfam | PF00097 | Zinc finger, C3HC4 type (RING finger) | 135 | 173 | 6.4E-7 | IPR018957 |
| SUPERFAMILY | SSF57850 | RING/U-box | 127 | 199 | 1.39E-16 | - |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 89 | 205 | 1.3E-22 | IPR013083 |
| SMART | SM00184 | ring_2 | 135 | 173 | 1.1E-6 | IPR001841 |
| ProSiteProfiles | PS50089 | Zinc finger RING-type profile. | 135 | 174 | 12.474524 | IPR001841 |
| ProSitePatterns | PS00518 | Zinc finger RING-type signature. | 150 | 159 | - | IPR017907 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 244 | 272 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 92 | 113 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 94 | 112 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 52 | 80 | - | - |
| Coils | Coil | Coil | 236 | 256 | - | - |
Gene Ontology
Molecular Function:
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT3G27330.1 | zinc finger (C3HC4-type RING finger) family protein. | 0 |
| RefSeq | XP_017217393.1 | PREDICTED: E3 ubiquitin-protein ligase RNF168-like [Daucus carota subsp. sativus] | 0 |
| Q8HXH0 | LON peptidase N-terminal domain and RING finger protein 3 OS=Macaca fascicularis OX=9541 GN=LONRF3 PE=2 SV=1 | 0 | |
| TrEMBL | A0A166HRK4 | RING-type domain-containing protein OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_002963 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 2.855063 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 2.442278 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 2.472968 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 2.510294 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 3.455148 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 4.194934 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 2.219114 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 2.572309 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 61.18721 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 52.025253 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 58.889854 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 42.693039 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 34.410976 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 38.336166 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 14.925277 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 15.837964 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 23.485209 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 18.103945 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 19.301603 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 11.310306 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 11.901665 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 25.649199 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 25.80949 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 28.367924 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 27.784109 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 25.429525 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 21.00478 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 24.928848 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 25.585751 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 21.726395 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 39.016796 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 32.195473 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 19.318512 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 26.387959 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 20.535107 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 11.555766 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 14.442184 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 13.478214 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 38.061535 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 18.884439 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 21.160606 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 6.401102 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 12.92743 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 54.525379 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 37.889992 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 4.934478 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 21.542809 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 34.807697 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 32.183685 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 37.833862 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 1 | jg40431 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_18683 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah013850 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_6g151380 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg42714, Sbi_jg45338 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg11201 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00002600 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl35071, Sgl40456 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000002210, gene:ENSEOMG00000013596 ... |
| Amaranthaceae | Chenopodium quinoa | 1 | CQ.Regalona.r1.6BG0003320 |
| Anacardiaceae | Pistacia vera | 2 | pistato.v30023800, pistato.v30024120 |
| Apiaceae | Apium graveolens | 1 | Ag7G01970 |
| Arecaceae | Cocos nucifera | 1 | scaffold000154G000350 |
| Arecaceae | Phoenix dactylifera | 1 | gene-LOC103719650 |
| Asparagaceae | Asparagus officinalis | 2 | AsparagusV1_01.1159.V1.1, AsparagusV1_09.210.V1.1 |
| Asteraceae | Flaveria trinervia | 1 | Ftri18G09959 |
| Brassicaceae | Brassica nigra | 1 | BniB04g007330.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq02G1945 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl02G2018 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno04g04410 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate09g09930 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 1 | nbisL1-mrna-2281 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG05.206 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00027809 |
| Plumbaginaceae | Limonium bicolor | 1 | Lb7G35296 |
| Poaceae | Echinochloa crus-galli | 3 | AH05.3202, BH05.3241, CH05.3312 |
| Poaceae | Eleusine coracana subsp. coracana | 1 | gene-QOZ80_5AG0387070 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.6HG0614710.1 |
| Poaceae | Lolium multiflorum | 1 | gene-QYE76_050102 |
| Poaceae | Oryza coarctata | 2 | Oco23G004660, Oco24G004130 |
| Poaceae | Oryza sativa | 1 | LOC_Os12g16690.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_04G083400 |
| Poaceae | Puccinellia tenuiflora | 2 | Pt_Chr0205328, Pt_Chr0205393 |
| Poaceae | Sporobolus alterniflorus | 6 | Chr01G029490, Chr03G020470, Chr04G020560, Chr06G021890 ... |
| Poaceae | Thinopyrum elongatum | 1 | Tel6E01G545900 |
| Poaceae | Triticum dicoccoides | 1 | gene_TRIDC6BG053370 |
| Poaceae | Triticum aestivum | 3 | TraesCS6A02G304300.1, TraesCS6B02G332400.1 ... |
| Poaceae | Zea mays | 2 | Zm00001eb111820_P002, Zm00001eb331370_P002 |
| Poaceae | Zoysia japonica | 1 | nbis-gene-12397 |
| Poaceae | Zoysia macrostachya | 1 | Zma_g25692 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG13.913, evm.TU.LG21.576 |
| Posidoniaceae | Posidonia oceanica | 2 | gene.Posoc01g07470, gene.Posoc01g23690 |
| Rhizophoraceae | Bruguiera sexangula | 2 | evm.TU.Scaffold_3_RagTag.1983, evm.TU.Scaffold_6_RagTag.75 |
| Rhizophoraceae | Carallia pectinifolia | 3 | nbisL1-mrna-14888, nbisL1-mrna-2449, nbisL1-mrna-2527 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-19348 |
| Rhizophoraceae | Ceriops zippeliana | 2 | nbisL1-mrna-3134, nbisL1-mrna-67 |
| Rhizophoraceae | Kandelia obovata | 2 | Maker00002137, Maker00007211 |
| Rhizophoraceae | Rhizophora apiculata | 2 | nbisL1-mrna-11924, nbisL1-mrna-11998 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-17516 |
| Salicaceae | Populus euphratica | 2 | populus_peu01176, populus_peu37547 |
| Solanaceae | Lycium barbarum | 2 | gene-LOC132605574, gene-LOC132622049 |
| Solanaceae | Solanum chilense | 2 | SOLCI000009100, SOLCI004252800 |
| Solanaceae | Solanum pennellii | 2 | gene-LOC107009516, gene-LOC107011320 |
| Tamaricaceae | Reaumuria soongarica | 1 | gene_14441 |
| Tamaricaceae | Tamarix chinensis | 2 | TC01G3526, TC03G0535 |
| Zosteraceae | Zostera marina | 1 | Zosma02g22990.v3.1 |