Basic Information
Locus ID:
Ag4G02806
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 |
|---|---|---|---|---|
| chr4 | 310626462 | 310632530 | + | Ag4G02806 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 5.81 | 81,415.66 Da | 72.89 | 70.11 | -0.57 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| Pfam | PF12678 | RING-H2 zinc finger domain | 705 | 740 | 1.9E-9 | IPR024766 |
| SUPERFAMILY | SSF57850 | RING/U-box | 655 | 743 | 1.39E-10 | - |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 624 | 744 | 2.0E-14 | IPR013083 |
| ProSiteProfiles | PS50089 | Zinc finger RING-type profile. | 715 | 740 | 9.361642 | IPR001841 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 453 | 470 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 491 | 529 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 227 | 241 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 453 | 478 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 493 | 518 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 380 | 403 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 187 | 241 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 33 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 187 | 205 | - | - |
| Coils | Coil | Coil | 746 | 750 | - | - |
Gene Ontology
Molecular Function:
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT5G42940.1 | RING/U-box superfamily protein. | 0 |
| RefSeq | XP_017242491.1 | PREDICTED: probable E3 ubiquitin-protein ligase RHG1A [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 | A0A165ZHM9 | E3 ubiquitin-protein ligase RHG1A OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_008801 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 32.754185 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 30.099121 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 27.131062 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 29.273628 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 29.23139 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 27.508146 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 24.391848 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 15.485848 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 69.787994 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 67.371033 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 69.096611 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 80.422203 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 68.939766 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 62.563602 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 19.391491 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 20.870367 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 21.764336 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 21.556725 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 20.368816 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 23.55212 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 24.298828 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 22.309214 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 21.615543 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 19.217268 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 23.57843 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 28.031845 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 24.103922 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 20.997543 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 25.691816 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 11.15875 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 12.649229 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 12.728873 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 29.049726 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 26.594067 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 26.366299 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 13.600544 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 8.400654 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 10.933642 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 25.79999 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 18.583601 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 15.469091 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 21.869511 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 23.323843 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 26.197073 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 24.875475 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 21.143085 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 25.168337 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 37.659142 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 36.192413 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 30.877958 | 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 |