Basic Information
Locus ID:
Ag8G01632
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
Ring finger domain
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr8 | 224121507 | 224126803 | - | Ag8G01632 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 6.20 | 38,778.79 Da | 63.74 | 68.54 | -0.68 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd16448 | RING-H2 | 27 | 68 | 5.87717E-12 | - |
| Pfam | PF13639 | Ring finger domain | 26 | 68 | 5.7E-9 | IPR001841 |
| SUPERFAMILY | SSF57850 | RING/U-box | 12 | 75 | 4.24E-17 | - |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 19 | 115 | 1.2E-14 | IPR013083 |
| SMART | SM00184 | ring_2 | 27 | 68 | 2.5E-8 | IPR001841 |
| ProSiteProfiles | PS50089 | Zinc finger RING-type profile. | 27 | 68 | 12.1057 | IPR001841 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 203 | 227 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 313 | 350 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 313 | 338 | - | - |
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT4G14220.1 | RING-H2 group F1A. encodes a RING-type E3 ubiquitin ligase implicated in gametogenesis. RHF1a can interact with the cell cycle inhibitor ICK4/KRP6 in vitro. It apppears to target ICK4KRP6 for degradation following meiosis in order to allow the mitoses associated with megagametogenesis and microgametogenesis to occur. RHF1a is expressed in the carpels throughout floral development. It is expressed in various tissues of the anthers during the early stages of anther development but not in stage 12 flowers and beyond. | 0 |
| RefSeq | XP_017220722.1 | PREDICTED: E3 ubiquitin-protein ligase RHF1A-like [Daucus carota subsp. sativus] | 0 |
| Q4TU14 | E3 ubiquitin-protein ligase RHF1A OS=Arabidopsis thaliana OX=3702 GN=RHF1A PE=1 SV=1 | 0 | |
| TrEMBL | A0A175YNV4 | RING-type domain-containing protein OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_027174 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 20.916182 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 21.948639 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 13.885769 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 15.162255 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 15.309279 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 9.828616 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 8.195136 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 4.534479 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 16.03141 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 14.674433 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 16.519201 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 12.199488 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 12.40948 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 9.424105 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 9.273233 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 8.106987 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 10.071027 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 14.909842 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 10.902164 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 31.557535 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 34.942265 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 21.284681 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 24.635202 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 24.264793 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 21.904547 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 13.61133 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 10.717362 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 12.511515 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 11.351408 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 2.036292 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 3.120106 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 2.975868 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 30.000452 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 29.300003 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 53.896713 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 13.514343 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 6.917079 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 10.185125 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 5.38008 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 4.80719 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 3.748973 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 37.868816 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 14.970337 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 12.805045 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 9.433204 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 27.705551 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 12.741991 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 23.235405 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 27.062815 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 34.338402 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 1 | jg12535 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_15596 |
| Amaranthaceae | Atriplex hortensis | 3 | Ah011649, Ah011922, Ah020230 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg5047, Sbi_jg6818 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg13002 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00003843 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl00365, Sgl05443 |
| Amaranthaceae | Chenopodium album | 2 | gene:ENSEOMG00000013669, gene:ENSEOMG00000031850 |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.3AG0013960, CQ.Regalona.r1.3BG0014030 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30237250 |
| Apiaceae | Apium graveolens | 1 | Ag8G01632 |
| Asteraceae | Flaveria trinervia | 1 | Ftri8G28976 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT4G14220.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10025539m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp7g12080.v2.2 |
| Brassicaceae | Brassica nigra | 1 | BniB03g015890.2N |
| Casuarinaceae | Casuarina equisetifolia | 2 | Ceq07G1035, Ceq09G1906 |
| Casuarinaceae | Casuarina glauca | 2 | Cgl07G1080, Cgl09G2079 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate04g26140 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG11.1092 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG06.1699, evm.TU.LG11.1057 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc01g11340 |
| Rhizophoraceae | Bruguiera sexangula | 2 | evm.TU.Scaffold_3_RagTag.475, evm.TU.Scaffold_6_RagTag.711 |
| Rhizophoraceae | Carallia pectinifolia | 1 | nbisL1-mrna-15979 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-12539 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-591 |
| Rhizophoraceae | Kandelia candel | 2 | evm.TU.utg000011l.428, evm.TU.utg000019l.934 |
| Rhizophoraceae | Kandelia obovata | 2 | Maker00006879, Maker00012590 |
| Rhizophoraceae | Rhizophora apiculata | 2 | nbisL1-mrna-15345, nbisL1-mrna-6332 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-2096 |
| Salicaceae | Populus euphratica | 2 | populus_peu07348, populus_peu21343 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132644975 |
| Solanaceae | Solanum chilense | 1 | SOLCI004394200 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107032476 |
| Tamaricaceae | Reaumuria soongarica | 1 | gene_9357 |
| Tamaricaceae | Tamarix chinensis | 1 | TC12G1426 |