Basic Information
Locus ID:
Ag7G00970
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
Transducin family protein WD-40 repeat family
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr7 | 77270028 | 77277077 | + | Ag7G00970 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 6.42 | 56,527.55 Da | 49.57 | 76.91 | -0.70 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd00200 | WD40 | 144 | 473 | 1.79205E-42 | - |
| Pfam | PF00400 | WD domain, G-beta repeat | 210 | 239 | 7.1E-6 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 245 | 281 | 8.6E-6 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 407 | 437 | 0.037 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 328 | 362 | 0.0065 | IPR001680 |
| SUPERFAMILY | SSF50978 | WD40 repeat-like | 144 | 484 | 1.47E-52 | IPR036322 |
| Gene3D | G3DSA:2.130.10.10 | - | 139 | 502 | 7.6E-111 | IPR015943 |
| SMART | SM00320 | WD40_4 | 242 | 281 | 2.0E-8 | IPR001680 |
| SMART | SM00320 | WD40_4 | 284 | 322 | 0.016 | IPR001680 |
| SMART | SM00320 | WD40_4 | 201 | 239 | 3.1E-6 | IPR001680 |
| SMART | SM00320 | WD40_4 | 139 | 178 | 0.012 | IPR001680 |
| SMART | SM00320 | WD40_4 | 403 | 438 | 3.6 | IPR001680 |
| SMART | SM00320 | WD40_4 | 324 | 362 | 0.36 | IPR001680 |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 249 | 281 | 11.154684 | - |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 207 | 248 | 14.117617 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 146 | 187 | 11.811761 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 249 | 290 | 14.284707 | IPR001680 |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 146 | 183 | 9.361965 | - |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 207 | 242 | 10.785595 | - |
| ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 226 | 240 | - | IPR019775 |
| PRINTS | PR00320 | G protein beta WD-40 repeat signature | 226 | 240 | 1.0E-5 | IPR020472 |
| PRINTS | PR00320 | G protein beta WD-40 repeat signature | 268 | 282 | 1.0E-5 | IPR020472 |
| PRINTS | PR00320 | G protein beta WD-40 repeat signature | 349 | 363 | 1.0E-5 | IPR020472 |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 69 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 40 | 62 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 83 | 107 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 13 | 39 | - | - |
Gene Ontology
Molecular Function:
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT4G21130.1 | Transducin/WD40 repeat-like superfamily protein. similar to man and yeast U3-55K genes, involved in processing of pre-ribosomal RNA. | 0 |
| RefSeq | XP_017245119.1 | PREDICTED: U3 snoRNP-associated protein-like EMB2271 [Daucus carota subsp. sativus] | 0 |
| Q3MKM6 | U3 snoRNP-associated protein-like EMB2271 OS=Arabidopsis thaliana OX=3702 GN=EMB2271 PE=2 SV=1 | 0 | |
| TrEMBL | A0A162B832 | WD_REPEATS_REGION domain-containing protein OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_003859 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 5.716999 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 3.97373 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 3.237098 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 2.972682 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 3.315466 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 3.398877 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 2.71185 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 3.05504 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 6.720573 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 6.243383 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 6.929626 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 7.135522 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 9.224114 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 7.634147 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 0.826529 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 2.020935 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 3.282371 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 2.571142 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 2.514156 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 6.339568 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 5.537883 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 5.508164 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 6.910576 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 4.820868 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 6.875509 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 5.599646 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 3.012503 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 3.610822 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 5.326882 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 2.466868 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 5.636254 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 5.220675 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 3.35131 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 5.602828 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 3.636506 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 3.36281 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 2.899547 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 3.315968 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 2.078454 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 0.951072 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 0.511545 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 4.906779 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 1.940003 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 5.627196 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 3.169842 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 8.524326 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 2.5704 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 10.518544 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 7.484151 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 10.481883 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 1 | jg38774 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_11220 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah016088 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_4g084190 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg27093, Sbi_jg33449 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg8131 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00020534 |
| Amaranthaceae | Suaeda glauca | 1 | Sgl43935 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000012101, gene:ENSEOMG00000034483 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.8AG0010330, CQ.Regalona.r1.8BG0012890 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30214040 |
| Apiaceae | Apium graveolens | 1 | Ag7G00970 |
| Arecaceae | Cocos nucifera | 2 | COCNU_06G020630, COCNU_14G008790 |
| Arecaceae | Phoenix dactylifera | 2 | gene-LOC103703641, gene-LOC103710502 |
| Asparagaceae | Asparagus officinalis | 1 | AsparagusV1_02.227.V1.1 |
| Asteraceae | Flaveria trinervia | 2 | Ftri11G17805, Ftri5G06660 |
| Brassicaceae | Arabidopsis thaliana | 2 | AT4G05410.1, AT4G21130.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10028589m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp6g03680.v2.2 |
| Brassicaceae | Brassica nigra | 2 | BniB08g038470.2N, BniB08g046630.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq04G1052 |
| Casuarinaceae | Casuarina glauca | 2 | Cgl04G1189, Cgl04G1196 |
| Cymodoceaceae | Cymodocea nodosa | 2 | gene.Cymno15g03230, gene.Cymno17g00090 |
| Dunaliellaceae | Dunaliella salina | 2 | Dusal.0191s00014.v1.0, Dusal.0191s00015.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate09g07830 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 1 | nbisL1-mrna-5329 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG07.60 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00004265 |
| Plumbaginaceae | Limonium bicolor | 1 | Lb4G24833 |
| Poaceae | Echinochloa crus-galli | 4 | AH01.1257, BH01.1468, CH05.2895, CH06.2662 |
| Poaceae | Eleusine coracana subsp. coracana | 4 | gene-QOZ80_3AG0224350, gene-QOZ80_3AG0236250 ... |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.5HG0428990.1 |
| Poaceae | Lolium multiflorum | 1 | gene-QYE76_001026 |
| Poaceae | Oryza coarctata | 2 | Oco05G018830, Oco06G019620 |
| Poaceae | Oryza sativa | 1 | LOC_Os03g42770.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_01G145000 |
| Poaceae | Puccinellia tenuiflora | 2 | Pt_Chr0704427, Pt_Chr0704431 |
| Poaceae | Sporobolus alterniflorus | 4 | Chr01G009440, Chr04G024810, Chr07G023640, Chr12G027580 |
| Poaceae | Thinopyrum elongatum | 1 | Tel5E01G099000 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC5AG006570, gene_TRIDC5BG007670 |
| Poaceae | Triticum aestivum | 2 | TraesCS5A02G043100.1, TraesCS5D02G051600.1 |
| Poaceae | Zea mays | 2 | Zm00001eb050650_P001, Zm00001eb218720_P001 |
| Poaceae | Zoysia japonica | 2 | nbis-gene-20461, nbis-gene-39603 |
| Poaceae | Zoysia macrostachya | 2 | Zma_g3196, Zma_g874 |
| Portulacaceae | Portulaca oleracea | 1 | evm.TU.LG09.1112 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc10g00140 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_14_RagTag.969 |
| Rhizophoraceae | Carallia pectinifolia | 1 | nbisL1-mrna-16815 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-19462 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-17268 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000025l.129 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00012196 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-8634 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-22974 |
| Salicaceae | Populus euphratica | 2 | populus_peu13632, populus_peu22795 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132622025 |
| Solanaceae | Solanum chilense | 1 | SOLCI000504900 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107008853 |
| Tamaricaceae | Reaumuria soongarica | 1 | gene_14391 |
| Tamaricaceae | Tamarix chinensis | 1 | TC01G3900 |
| Zosteraceae | Zostera marina | 1 | Zosma06g12600.v3.1 |