Basic Information
Locus ID:
Ag1G01974
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 |
|---|---|---|---|---|
| chr1 | 198673320 | 198680693 | + | Ag1G01974 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 7.14 | 149,218.86 Da | 50.23 | 94.07 | -0.25 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| Pfam | PF00400 | WD domain, G-beta repeat | 1085 | 1119 | 5.5E-4 | IPR001680 |
| SUPERFAMILY | SSF48371 | ARM repeat | 132 | 990 | 2.06E-11 | IPR016024 |
| SUPERFAMILY | SSF50978 | WD40 repeat-like | 1048 | 1327 | 2.33E-27 | IPR036322 |
| Gene3D | G3DSA:1.25.10.10 | - | 668 | 1023 | 2.8E-5 | IPR011989 |
| Gene3D | G3DSA:2.130.10.10 | - | 1029 | 1292 | 8.5E-24 | IPR015943 |
| SMART | SM00320 | WD40_4 | 1036 | 1076 | 14.0 | IPR001680 |
| SMART | SM00320 | WD40_4 | 1125 | 1161 | 22.0 | IPR001680 |
| SMART | SM00320 | WD40_4 | 1081 | 1120 | 3.6E-6 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 1088 | 1121 | 11.44416 | IPR001680 |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 1088 | 1121 | 9.572873 | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 246 | 282 | - | - |
| Coils | Coil | Coil | 91 | 111 | - | - |
Gene Ontology
Molecular Function:
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT3G06880.2 | Transducin/WD40 repeat-like superfamily protein. | 0 |
| RefSeq | XP_017227163.1 | PREDICTED: putative E3 ubiquitin-protein ligase LIN-1 [Daucus carota subsp. sativus] | 0 |
| D1FP53 | Putative E3 ubiquitin-protein ligase LIN OS=Medicago truncatula OX=3880 GN=LIN PE=2 SV=1 | 0 | |
| TrEMBL | A0A175YI99 | NAD(P)-bd_dom domain-containing protein OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_030519 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 1.295752 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 1.095878 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 0.857098 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 1.201352 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 1.188831 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 0.372618 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 0.25924 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 0.226649 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 22.394793 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 22.949873 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 24.789099 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 16.77487 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 16.557638 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 14.463634 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 8.11474 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 11.98809 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 12.105339 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 20.028996 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 26.530018 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 10.847193 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 14.087401 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 7.833264 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 9.483006 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 8.548275 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 9.534965 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 34.084957 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 24.457075 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 32.914848 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 30.322231 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 2.738767 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 6.259102 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 3.600909 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 2.641922 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 2.378356 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 3.234891 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 1.450878 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 0.906074 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 1.062341 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 45.813305 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 21.067884 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 15.054621 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 0.161972 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 1.131194 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 0.481182 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 0.538641 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 0.137954 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 0.725127 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 10.192003 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 6.555522 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 7.229154 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 4 | jg12412, jg28043, jg28044, jg28045 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30234310 |
| Apiaceae | Apium graveolens | 1 | Ag1G01974 |
| Arecaceae | Cocos nucifera | 2 | COCNU_04G010180, COCNU_16G003580 |
| Arecaceae | Phoenix dactylifera | 3 | gene-LOC103703612, gene-LOC103707236, gene-LOC120110213 |
| Asparagaceae | Asparagus officinalis | 1 | AsparagusV1_07.955.V1.1 |
| Asteraceae | Flaveria trinervia | 2 | Ftri14G25308, Ftri7G30923 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT3G06880.2 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10019914m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp3g05840.v2.2 |
| Brassicaceae | Brassica nigra | 1 | BniB03g024330.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq09G1131 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl09G1228 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno05g17370 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate01g31080 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG11.1296 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00026116 |
| Poaceae | Echinochloa crus-galli | 3 | AH05.2746, BH05.2867, CH09.2684 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_5AG0376180, gene-QOZ80_5BG0423400 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.1HG0060600.1 |
| Poaceae | Lolium multiflorum | 2 | gene-QYE76_013817, gene-QYE76_013818 |
| Poaceae | Oryza coarctata | 2 | Oco09G007630, Oco10G007870 |
| Poaceae | Oryza sativa | 1 | LOC_Os05g30010.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_09G118200 |
| Poaceae | Puccinellia tenuiflora | 2 | Pt_Chr0503579, Pt_Chr0505358 |
| Poaceae | Sporobolus alterniflorus | 5 | Chr01G021970, Chr12G015950, Chr18G007060, Chr19G016490 ... |
| Poaceae | Thinopyrum elongatum | 1 | Tel1E01G385600 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC1AG034700, gene_TRIDC1BG040070 |
| Poaceae | Triticum aestivum | 4 | TraesCS1A02G230200.1.cds1, TraesCS1A02G230300.1 ... |
| Poaceae | Zea mays | 1 | Zm00001eb285640_P003 |
| Poaceae | Zoysia japonica | 2 | nbis-gene-38787, nbis-gene-38788 |
| Poaceae | Zoysia macrostachya | 1 | Zma_g28115 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc01g32270 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_3_RagTag.587 |
| Rhizophoraceae | Carallia pectinifolia | 1 | nbisL1-mrna-1378 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-21337 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-6297 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000019l.858 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00012702 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-12196 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-18189 |
| Salicaceae | Populus euphratica | 1 | populus_peu08060 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132626786 |
| Solanaceae | Solanum chilense | 1 | SOLCI007170600 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107006707 |
| Zosteraceae | Zostera marina | 1 | Zosma01g28250.v3.1 |