Basic Information
Locus ID:
Ag6G01867
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
E3 ubiquitin-protein ligase RNF170-like
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr6 | 131659829 | 131664532 | - | Ag6G01867 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 8.84 | 25,263.33 Da | 51.89 | 95.74 | 0.14 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| Pfam | PF13445 | RING-type zinc-finger | 40 | 80 | 3.8E-6 | IPR027370 |
| SUPERFAMILY | SSF57850 | RING/U-box | 34 | 89 | 2.52E-14 | - |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 10 | 120 | 5.3E-13 | IPR013083 |
| SMART | SM00184 | ring_2 | 40 | 82 | 8.5E-6 | IPR001841 |
| ProSiteProfiles | PS50089 | Zinc finger RING-type profile. | 40 | 83 | 11.338544 | IPR001841 |
| ProSitePatterns | PS00518 | Zinc finger RING-type signature. | 55 | 64 | - | IPR017907 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 30 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 9 | 23 | - | - |
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT4G33940.1 | RING/U-box superfamily protein. | 0 |
| RefSeq | XP_017231266.1 | PREDICTED: E3 ubiquitin-protein ligase RNF170-like isoform X2 [Daucus carota subsp. sativus] | 0 |
| F1MK05 | E3 ubiquitin-protein ligase RNF170 OS=Bos taurus OX=9913 GN=RNF170 PE=3 SV=2 | 0 | |
| TrEMBL | A0A166DZ03 | RING-type domain-containing protein OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_006694 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 13.536671 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 10.293535 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 28.473604 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 21.659134 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 21.723688 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 64.276924 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 42.55698 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 93.960701 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 5.355867 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 4.816801 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 5.914246 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 4.759048 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 4.482055 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 4.040468 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 5.579434 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 2.967525 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 4.581632 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 6.045003 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 4.599737 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 5.121027 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 6.324668 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 2.774675 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 3.953158 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 3.365741 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 3.308945 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 5.311082 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 3.697527 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 6.241395 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 4.652069 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 14.789194 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 15.867473 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 12.103086 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 11.577329 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 6.962381 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 12.525031 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 12.77607 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 11.024926 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 12.504045 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 5.440198 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 8.333202 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 10.387632 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 7.135801 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 8.249943 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 6.419226 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 6.620301 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 8.830686 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 8.352364 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 4.352489 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 2.57888 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 5.168721 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 5 | jg12246, jg1288, jg23290, jg28389, jg30870 |
| Aizoaceae | Mesembryanthemum crystallinum | 3 | gene_17190, gene_17543, gene_23467 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah022725 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_1g001790 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg3758, Sbi_jg49012 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg6227 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00000710 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl10764, Sgl16119 |
| Amaranthaceae | Chenopodium album | 2 | gene:ENSEOMG00000033196, gene:ENSEOMG00000047064 |
| Amaranthaceae | Chenopodium quinoa | 1 | CQ.Regalona.r1.2BG0027350 |
| Anacardiaceae | Pistacia vera | 3 | pistato.v30034220, pistato.v30111940, pistato.v30113160 |
| Apiaceae | Apium graveolens | 2 | Ag4G01233, Ag6G01867 |
| Arecaceae | Cocos nucifera | 1 | COCNU_15G002550 |
| Arecaceae | Phoenix dactylifera | 2 | gene-LOC103701296, gene-LOC103711272 |
| Asparagaceae | Asparagus officinalis | 2 | AsparagusV1_04.2598.V1.1, AsparagusV1_10.549.V1.1 |
| Asteraceae | Flaveria trinervia | 5 | Ftri10G04811, Ftri14G23567, Ftri3G27579, Ftri9G22853 ... |
| Brassicaceae | Arabidopsis thaliana | 3 | AT1G22510.2, AT1G72175.1, AT4G33940.1 |
| Brassicaceae | Eutrema salsugineum | 3 | Thhalv10008870m.g.v1.0, Thhalv10019196m.g.v1.0 ... |
| Brassicaceae | Schrenkiella parvula | 2 | Sp5g27260.v2.2, Sp7g31670.v2.2 |
| Brassicaceae | Brassica nigra | 6 | BniB02g086640.2N, BniB03g030310.2N, BniB03g050340.2N ... |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq04G2528 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl04G2751 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno05g00680 |
| Dunaliellaceae | Dunaliella salina | 1 | Dusal.0012s00034.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate09g01470 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 1 | nbisL1-mrna-9437 |
| Nitrariaceae | Nitraria sibirica | 2 | evm.TU.LG06.1358, evm.TU.LG08.31 |
| Plantaginaceae | Plantago ovata | 7 | Pov_00001995, Pov_00022386, Pov_00028197, Pov_00028200 ... |
| Plumbaginaceae | Limonium bicolor | 6 | Lb0G37227, Lb5G26984, Lb5G29443, Lb8G35694, Lb8G35895 ... |
| Poaceae | Echinochloa crus-galli | 3 | AH01.518, BH01.217, CH01.58 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_3AG0209000, gene-QOZ80_3BG0254040 |
| Poaceae | Hordeum vulgare | 4 | HORVU.MOREX.r3.3HG0323970.1, HORVU.MOREX.r3.5HG0530970.1 ... |
| Poaceae | Lolium multiflorum | 3 | gene-QYE76_058807, gene-QYE76_058847, gene-QYE76_060348 |
| Poaceae | Oryza coarctata | 1 | Oco05G028480 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_01G017400 |
| Poaceae | Puccinellia tenuiflora | 3 | Pt_Chr0106113, Pt_Chr0106164, Pt_Chr0108072 |
| Poaceae | Sporobolus alterniflorus | 4 | Chr01G000770, Chr04G032250, Chr07G031310, Chr12G032270 |
| Poaceae | Thinopyrum elongatum | 3 | Tel3E01G829800, Tel3E01G830000, Tel5E01G806600 |
| Poaceae | Triticum dicoccoides | 4 | gene_TRIDC3AG071660, gene_TRIDC3BG082020 ... |
| Poaceae | Triticum aestivum | 5 | TraesCS3B02G567600.1, TraesCS3D02G511300.1 ... |
| Poaceae | Zoysia japonica | 1 | nbis-gene-15612 |
| Poaceae | Zoysia macrostachya | 1 | Zma_g87 |
| Portulacaceae | Portulaca oleracea | 1 | evm.TU.LG19.1365 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc01g01780 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_2_RagTag.288 |
| Rhizophoraceae | Carallia pectinifolia | 2 | nbisL1-mrna-4903, nbisL1-mrna-9571 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-20142 |
| Rhizophoraceae | Ceriops zippeliana | 2 | nbisL1-mrna-18223, nbisL1-mrna-9846 |
| Rhizophoraceae | Kandelia candel | 2 | evm.TU.utg000009l.779, evm.TU.utg000018l.569 |
| Rhizophoraceae | Kandelia obovata | 2 | Maker00003516, Maker00005506 |
| Rhizophoraceae | Rhizophora apiculata | 2 | nbisL1-mrna-2478, nbisL1-mrna-2942 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-6095 |
| Salicaceae | Populus euphratica | 2 | populus_peu08975, populus_peu18971 |
| Solanaceae | Lycium barbarum | 4 | gene-LOC132598679, gene-LOC132598681, gene-LOC132622172 ... |
| Solanaceae | Solanum chilense | 2 | SOLCI002906800, SOLCI002906900 |
| Solanaceae | Solanum pennellii | 3 | gene-LOC107003317, gene-LOC107007121, gene-LOC107007149 |
| Tamaricaceae | Reaumuria soongarica | 1 | STRG.26524_chr11_+ |
| Tamaricaceae | Tamarix chinensis | 1 | TC03G2409 |
| Zosteraceae | Zostera marina | 1 | Zosma01g42370.v3.1 |