Basic Information
Locus ID:
Ag5G02726
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
Zinc finger, C3HC4 type (RING finger)
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr5 | 314258350 | 314262677 | + | Ag5G02726 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 5.52 | 27,414.41 Da | 57.26 | 72.63 | -0.65 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| Pfam | PF13639 | Ring finger domain | 44 | 87 | 1.5E-8 | IPR001841 |
| SUPERFAMILY | SSF57850 | RING/U-box | 37 | 93 | 6.09E-14 | - |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 21 | 93 | 1.1E-11 | IPR013083 |
| SMART | SM00184 | ring_2 | 44 | 86 | 1.4E-5 | IPR001841 |
| ProSiteProfiles | PS50089 | Zinc finger RING-type profile. | 44 | 87 | 12.297489 | IPR001841 |
| ProSitePatterns | PS00518 | Zinc finger RING-type signature. | 62 | 71 | - | IPR017907 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 178 | 243 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 200 | 233 | - | - |
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT5G19430.1 | RING/U-box superfamily protein. | 0 |
| RefSeq | XP_017215566.1 | PREDICTED: uncharacterized protein LOC108193428 [Daucus carota subsp. sativus] | 0 |
| TrEMBL | A0A2R6P854 | RING-type domain-containing protein OS=Actinidia chinensis var. chinensis OX=1590841 GN=CEY00_Acc32404 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 31.071913 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 26.340384 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 29.503723 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 26.54434 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 27.470592 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 35.987247 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 27.287264 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 32.123714 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 71.627182 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 69.320312 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 67.599014 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 69.176353 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 59.659245 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 72.626183 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 24.861855 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 26.264503 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 31.001871 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 28.709354 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 23.990746 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 25.78549 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 28.247688 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 33.908707 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 33.566967 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 35.87505 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 31.984701 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 32.025917 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 29.866482 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 29.149164 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 31.797888 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 68.091644 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 85.855927 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 86.463799 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 48.288612 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 46.314587 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 38.668236 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 40.224636 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 68.138138 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 47.571163 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 32.692974 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 33.819206 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 32.796532 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 27.404484 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 40.215248 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 71.557945 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 63.205235 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 24.541544 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 46.07457 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 56.55542 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 82.599464 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 68.885712 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 3 | jg16217, jg16352, jg8525 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_9971 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah005068 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_4g073650 |
| Amaranthaceae | Salicornia bigelovii | 15 | Sbi_jg17820, Sbi_jg17821, Sbi_jg17822, Sbi_jg17823 ... |
| Amaranthaceae | Salicornia europaea | 3 | Seu_jg1012, Seu_jg1032, Seu_jg1033 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00007206 |
| Amaranthaceae | Suaeda glauca | 1 | Sgl59153 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000010324, gene:ENSEOMG00000028024 ... |
| Amaranthaceae | Chenopodium quinoa | 1 | CQ.Regalona.r1.4BG0002290 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30050740 |
| Apiaceae | Apium graveolens | 1 | Ag5G02726 |
| Arecaceae | Cocos nucifera | 1 | COCNU_16G002070 |
| Arecaceae | Phoenix dactylifera | 2 | gene-LOC103701648, gene-LOC103716918 |
| Asparagaceae | Asparagus officinalis | 2 | AsparagusV1_05.62.V1.1, AsparagusV1_07.1648.V1.1 |
| Asteraceae | Flaveria trinervia | 1 | Ftri17G18129 |
| Brassicaceae | Arabidopsis thaliana | 2 | AT5G12310.1, AT5G19430.1 |
| Brassicaceae | Eutrema salsugineum | 2 | Thhalv10014461m.g.v1.0, Thhalv10014482m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 2 | Sp6g24980.v2.2, Sp6g31330.v2.2 |
| Brassicaceae | Brassica nigra | 3 | BniB02g049830.2N, BniB08g005900.2N, BniB08g009810.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq05G1637 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl05G1630 |
| Cymodoceaceae | Cymodocea nodosa | 4 | gene.Cymno02g17270, gene.Cymno02g17290, gene.Cymno02g17320 ... |
| Dunaliellaceae | Dunaliella salina | 1 | Dusal.0538s00011.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate01g16130 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG09.135 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00017209 |
| Plumbaginaceae | Limonium bicolor | 1 | Lb3G15614 |
| Poaceae | Echinochloa crus-galli | 3 | AH02.4545, BH02.4598, CH02.4644 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_1AG0046950, gene-QOZ80_1BG0096810 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.3HG0321940.1 |
| Poaceae | Lolium multiflorum | 1 | gene-QYE76_058197 |
| Poaceae | Oryza coarctata | 2 | Oco01G030150, Oco02G031320 |
| Poaceae | Oryza sativa | 1 | LOC_Os01g72480.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_03G405400 |
| Poaceae | Puccinellia tenuiflora | 1 | Pt_Chr0605453 |
| Poaceae | Sporobolus alterniflorus | 4 | Chr02G000870, Chr05G033950, Chr0G004180, Chr27G001190 |
| Poaceae | Thinopyrum elongatum | 1 | Tel3E01G804700 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC3AG070300, gene_TRIDC3BG079520 |
| Poaceae | Triticum aestivum | 3 | TraesCS3A02G491300.2, TraesCS3B02G552300.1 ... |
| Poaceae | Zea mays | 1 | Zm00001eb140640_P001 |
| Poaceae | Zoysia japonica | 2 | nbis-gene-10809, nbis-gene-59006 |
| Poaceae | Zoysia macrostachya | 1 | Zma_g9394 |
| Portulacaceae | Portulaca oleracea | 4 | evm.TU.LG08.1766, evm.TU.LG18.1694, evm.TU.LG20.190 ... |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc02g05080 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_13_RagTag.990 |
| Rhizophoraceae | Carallia pectinifolia | 1 | nbisL1-mrna-30031 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-12446 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-16353 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000015l.591 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00015875 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-4495 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-20804 |
| Salicaceae | Populus euphratica | 2 | populus_peu01781, populus_peu36038 |
| Solanaceae | Lycium barbarum | 2 | gene-LOC132626386, gene-LOC132643651 |
| Solanaceae | Solanum chilense | 1 | SOLCI001223000 |
| Solanaceae | Solanum pennellii | 2 | gene-LOC107004662, gene-LOC107009388 |
| Tamaricaceae | Reaumuria soongarica | 1 | gene_4710 |
| Tamaricaceae | Tamarix chinensis | 6 | TC02G2899, TC02G2902, TC02G2904, TC02G2906, TC02G2908 ... |
| Zosteraceae | Zostera marina | 2 | Zosma01g36450.v3.1, Zosma04g24900.v3.1 |