Basic Information
Locus ID:
Ag3G01724
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
E3 ubiquitin-protein ligase
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr3 | 134879828 | 134890337 | - | Ag3G01724 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 5.48 | 142,301.23 Da | 47.51 | 87.43 | -0.09 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd16541 | RING-HC_RNF123 | 1215 | 1255 | 2.34667E-17 | - |
| CDD | cd12882 | SPRY_RNF123 | 135 | 263 | 3.67164E-78 | IPR035773 |
| Pfam | PF00622 | SPRY domain | 146 | 264 | 3.8E-25 | IPR003877 |
| Pfam | PF10408 | Ubiquitin elongating factor core | 748 | 956 | 5.7E-5 | IPR019474 |
| SUPERFAMILY | SSF57850 | RING/U-box | 1202 | 1261 | 3.26E-6 | - |
| SUPERFAMILY | SSF49899 | Concanavalin A-like lectins/glucanases | 131 | 280 | 5.54E-32 | IPR013320 |
| Gene3D | G3DSA:2.60.120.920 | - | 114 | 289 | 5.9E-45 | IPR043136 |
| Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain, C3HC4 (zinc finger) | 1211 | 1265 | 1.4E-8 | IPR013083 |
| SMART | SM00449 | SPRY_3 | 144 | 266 | 7.5E-34 | IPR003877 |
| ProSiteProfiles | PS50188 | B30.2/SPRY domain profile. | 70 | 267 | 16.666164 | IPR001870 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 687 | 726 | - | - |
Gene Ontology
Biological Process:
Molecular Function:
Cellular Component:
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT2G22010.1 | related to KPC1. Encodes a protein predicted to act as a RING E3 ubiquitin ligase. It appears to regulate the stability of the KRP1/ICK1 cyclin dependent kinase inhibitor. Induced by beet severe curly virus (BSCTV) C4 protein. | 0 |
| RefSeq | XP_017247227.1 | PREDICTED: E3 ubiquitin-protein ligase RKP [Daucus carota subsp. sativus] | 0 |
| Q9SIZ8 | E3 ubiquitin-protein ligase RKP OS=Arabidopsis thaliana OX=3702 GN=RKP PE=2 SV=2 | 0 | |
| TrEMBL | A0A165XPI1 | B30.2/SPRY domain-containing protein OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_014257 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 24.451521 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 18.655462 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 24.095058 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 24.509275 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 26.240032 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 36.697506 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 31.400061 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 40.167351 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 31.681225 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 34.257225 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 35.3652 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 32.846985 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 32.200359 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 26.127522 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 10.960847 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 10.778012 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 10.749036 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 21.961592 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 16.318939 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 23.860359 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 35.368797 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 10.105831 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 12.012925 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 12.258452 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 11.432034 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 24.365644 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 17.317284 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 19.247913 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 20.730862 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 7.349872 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 12.271311 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 8.038733 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 18.316856 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 10.971848 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 18.116003 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 12.655772 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 6.947772 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 8.681211 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 15.933086 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 16.881935 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 14.879461 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 50.127041 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 24.520905 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 54.562645 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 34.682098 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 40.015053 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 40.963039 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 15.904346 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 19.87199 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 18.643776 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 2 | jg16987, jg39464 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_8229 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah026782 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_6g139380 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg59837, Sbi_jg62730 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg24102 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00017483 |
| Amaranthaceae | Suaeda glauca | 4 | Sgl33317, Sgl38504, Sgl38505, Sgl38542 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000001084, gene:ENSEOMG00000004034 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.6AG0019470, CQ.Regalona.r1.6BG0020510 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30199370 |
| Apiaceae | Apium graveolens | 1 | Ag3G01724 |
| Arecaceae | Cocos nucifera | 1 | COCNU_03G006290 |
| Arecaceae | Phoenix dactylifera | 1 | gene-LOC103721719 |
| Asteraceae | Flaveria trinervia | 2 | Ftri17G08340, Ftri6G16363 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT2G22010.2 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10000015m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp4g01070.v2.2 |
| Brassicaceae | Brassica nigra | 1 | BniB02g017770.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq06G1801 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl06G1867 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno11g06360 |
| Dunaliellaceae | Dunaliella salina | 3 | Dusal.0073s00004.v1.0, Dusal.0073s00005.v1.0 ... |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate04g06890 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 1 | nbisL1-mrna-4372 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG02.743 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00014459 |
| Plumbaginaceae | Limonium bicolor | 3 | Lb7G34211, Lb7G34212, Lb8G36358 |
| Poaceae | Echinochloa crus-galli | 3 | AH03.3776, BH03.4059, CH03.4331 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_7AG0578200, gene-QOZ80_7BG0609490 |
| Poaceae | Oryza coarctata | 1 | Oco13G013260 |
| Poaceae | Oryza sativa | 1 | LOC_Os07g43380.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_02G358700 |
| Poaceae | Sporobolus alterniflorus | 3 | Chr24G010280, Chr24G014680, Chr28G012220 |
| Poaceae | Zea mays | 1 | Zm00001eb328050_P001 |
| Poaceae | Zoysia japonica | 1 | nbis-gene-311 |
| Poaceae | Zoysia macrostachya | 1 | Zma_g6901 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG07.290, evm.TU.LG15.663 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc04g14340 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_6_RagTag.1629 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-16557 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-12144 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000011l.985 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00007857 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-15096 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-4447 |
| Salicaceae | Populus euphratica | 2 | populus_peu13852, populus_peu23010 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132615108 |
| Solanaceae | Solanum chilense | 1 | SOLCI004197700 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107017823 |
| Tamaricaceae | Reaumuria soongarica | 1 | gene_2684 |
| Tamaricaceae | Tamarix chinensis | 1 | TC11G0228 |