Basic Information
Locus ID:
Ag3G00149
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
RING-H2 zinc finger domain
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr3 | 2916813 | 2922537 | + | Ag3G00149 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 5.98 | 75,404.54 Da | 68.01 | 61.39 | -0.71 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd16481 | RING-H2_TTC3 | 646 | 688 | 3.00798E-20 | - |
| Pfam | PF13639 | Ring finger domain | 647 | 688 | 4.9E-12 | IPR001841 |
| SUPERFAMILY | SSF57850 | RING/U-box | 640 | 691 | 7.36E-19 | - |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 609 | 692 | 8.6E-19 | IPR013083 |
| SMART | SM00184 | ring_2 | 647 | 687 | 1.4E-7 | IPR001841 |
| ProSiteProfiles | PS50089 | Zinc finger RING-type profile. | 647 | 688 | 12.518784 | IPR001841 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 480 | 510 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 480 | 523 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 171 | 205 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 171 | 238 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 215 | 238 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 438 | 463 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 354 | 399 | - | - |
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT5G42940.1 | RING/U-box superfamily protein. | 0 |
| RefSeq | XP_017246973.1 | PREDICTED: probable E3 ubiquitin-protein ligase RHG1A 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 | A0A162AE82 | RING-type domain-containing protein OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_012786 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 34.223824 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 25.586653 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 28.941442 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 27.074738 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 29.583101 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 29.205078 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 26.680578 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 21.615826 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 58.937542 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 51.7211 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 58.263371 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 62.142387 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 56.855869 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 51.674015 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 20.637871 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 21.367819 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 23.805267 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 24.012039 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 21.231798 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 22.457958 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 26.147572 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 32.026878 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 33.955742 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 23.173721 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 29.117004 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 26.691053 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 25.714203 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 25.523603 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 28.614971 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 25.513309 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 19.511457 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 19.250668 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 41.153793 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 41.385197 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 34.096165 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 34.067898 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 31.856293 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 29.147196 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 36.48996 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 18.559984 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 15.385798 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 31.391232 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 43.682575 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 142.45343 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 106.374611 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 24.805067 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 78.778763 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 50.608788 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 102.410561 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 84.292007 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 6 | jg10686, jg1093, jg11612, jg22761, jg26257, jg28663 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah036864 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_1g015820 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg39381, Sbi_jg54958 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg14943 |
| Amaranthaceae | Suaeda aralocaspica | 2 | GOSA_00015684, GOSA_00015685 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl14596, Sgl19766 |
| Amaranthaceae | Chenopodium album | 4 | gene:ENSEOMG00000017468, gene:ENSEOMG00000019756 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.1AG0018540, CQ.Regalona.r1.1BG0006190 |
| Anacardiaceae | Pistacia vera | 2 | pistato.v30045000, pistato.v30213610 |
| Apiaceae | Apium graveolens | 6 | Ag2G00365, Ag2G01477, Ag3G00149, Ag3G00280, Ag4G02806 ... |
| Arecaceae | Cocos nucifera | 4 | COCNU_01G010520, COCNU_08G005100, COCNU_11G000140 ... |
| Arecaceae | Phoenix dactylifera | 4 | gene-LOC103706500, gene-LOC103710076, gene-LOC103711499 ... |
| Asparagaceae | Asparagus officinalis | 5 | AsparagusV1_01.134.V1.1, AsparagusV1_02.1820.V1.1 ... |
| Asteraceae | Flaveria trinervia | 5 | Ftri15G02088, Ftri18G06204, Ftri1G14490, Ftri4G09488 ... |
| Brassicaceae | Arabidopsis thaliana | 4 | AT1G45180.1, AT2G15530.4, AT4G34040.1, AT5G42940.1 |
| Brassicaceae | Eutrema salsugineum | 4 | Thhalv10003162m.g.v1.0, Thhalv10011314m.g.v1.0 ... |
| Brassicaceae | Schrenkiella parvula | 4 | Sp1g33980.v2.2, Sp2g07690.v2.2, Sp3g28780.v2.2 ... |
| Brassicaceae | Brassica nigra | 6 | BniB02g060490.2N, BniB03g062400.2N, BniB04g017820.2N ... |
| Casuarinaceae | Casuarina equisetifolia | 3 | Ceq03G1753, Ceq03G1818, Ceq07G2124 |
| Casuarinaceae | Casuarina glauca | 3 | Cgl03G1876, Cgl03G1959, Cgl07G2351 |
| Cymodoceaceae | Cymodocea nodosa | 2 | gene.Cymno13g02040, gene.Cymno17g04730 |
| Hydrocharitaceae | Thalassia testudinum | 2 | gene.Thate04g25530, gene.Thate04g29030 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 5 | nbisL1-mrna-10044, nbisL1-mrna-12425, nbisL1-mrna-1254 ... |
| Nitrariaceae | Nitraria sibirica | 2 | evm.TU.LG06.410, evm.TU.LG08.493 |
| Plantaginaceae | Plantago ovata | 2 | Pov_00007639, Pov_00027588 |
| Plumbaginaceae | Limonium bicolor | 2 | Lb3G20823, Lb5G26824 |
| Poaceae | Echinochloa crus-galli | 3 | AH09.2505, BH09.2727, CH09.2924 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_4AG0301650, gene-QOZ80_4BG0332360 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.2HG0204830.1 |
| Poaceae | Lolium multiflorum | 1 | gene-QYE76_046717 |
| Poaceae | Oryza coarctata | 2 | Oco07G017520, Oco08G016910 |
| Poaceae | Oryza sativa | 1 | LOC_Os04g55510.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_06G258900 |
| Poaceae | Puccinellia tenuiflora | 2 | Pt_Chr0300716, Pt_Chr0300770 |
| Poaceae | Sporobolus alterniflorus | 4 | Chr23G002440, Chr25G002010, Chr26G016910, Chr30G001990 |
| Poaceae | Thinopyrum elongatum | 1 | Tel2E01G872200 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC2AG072300, gene_TRIDC2BG078200 |
| Poaceae | Triticum aestivum | 3 | TraesCS2A02G514400.3, TraesCS2B02G542200.2 ... |
| Poaceae | Zea mays | 2 | Zm00001eb068540_P001, Zm00001eb432070_P001 |
| Poaceae | Zoysia japonica | 1 | nbis-gene-23016 |
| Poaceae | Zoysia macrostachya | 1 | Zma_g20557 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG01.241, evm.TU.LG04.513 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc10g04590 |
| Rhizophoraceae | Bruguiera sexangula | 3 | evm.TU.Scaffold_1_RagTag.2088, evm.TU.Scaffold_7_RagTag.748 ... |
| Rhizophoraceae | Carallia pectinifolia | 4 | nbisL1-mrna-19187, nbisL1-mrna-4865, nbisL1-mrna-5898 ... |
| Rhizophoraceae | Ceriops tagal | 4 | nbisL1-mrna-10078, nbisL1-mrna-17844, nbisL1-mrna-4182 ... |
| Rhizophoraceae | Ceriops zippeliana | 4 | nbisL1-mrna-20682, nbisL1-mrna-3449, nbisL1-mrna-6605 ... |
| Rhizophoraceae | Kandelia candel | 5 | add.evm.TU.utg000009l.273, add.evm.TU.utg000009l.274 ... |
| Rhizophoraceae | Kandelia obovata | 3 | Maker00002915, Maker00010643, Maker00016669 |
| Rhizophoraceae | Rhizophora apiculata | 4 | nbisL1-mrna-11411, nbisL1-mrna-18629, nbisL1-mrna-4770 ... |
| Rhizophoraceae | Rhizophora mangle | 3 | nbisL1-mrna-10013, nbisL1-mrna-14028, nbisL1-mrna-23848 |
| Salicaceae | Populus euphratica | 4 | populus_peu01508, populus_peu01509, populus_peu31998 ... |
| Solanaceae | Lycium barbarum | 4 | gene-LOC132599029, gene-LOC132604090, gene-LOC132606508 ... |
| Solanaceae | Solanum chilense | 4 | SOLCI000181100, SOLCI003771800, SOLCI004019700 ... |
| Solanaceae | Solanum pennellii | 5 | gene-LOC107002386, gene-LOC107004874, gene-LOC107004894 ... |
| Tamaricaceae | Reaumuria soongarica | 1 | gene_1735 |
| Tamaricaceae | Tamarix chinensis | 2 | TC04G2542, TC10G2198 |
| Zosteraceae | Zostera marina | 2 | Zosma03g23410.v3.1, Zosma05g19290.v3.1 |