Basic Information
Locus ID:
Ag3G00062
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
WD and tetratricopeptide repeats protein
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr3 | 1598046 | 1611878 | - | Ag3G00062 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 5.63 | 83,612.83 Da | 48.55 | 76.44 | -0.41 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| Pfam | PF00400 | WD domain, G-beta repeat | 44 | 78 | 3.1E-7 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 660 | 696 | 0.047 | IPR001680 |
| SUPERFAMILY | SSF50978 | WD40 repeat-like | 39 | 696 | 5.04E-51 | IPR036322 |
| SUPERFAMILY | SSF48452 | TPR-like | 402 | 477 | 3.8E-8 | IPR011990 |
| Gene3D | G3DSA:2.130.10.10 | - | 32 | 344 | 1.5E-34 | IPR015943 |
| Gene3D | G3DSA:1.25.40.10 | Tetratricopeptide repeat domain | 359 | 512 | 7.4E-9 | IPR011990 |
| Gene3D | G3DSA:2.130.10.10 | - | 611 | 722 | 2.9E-14 | IPR015943 |
| SMART | SM00320 | WD40_4 | 81 | 123 | 0.029 | IPR001680 |
| SMART | SM00320 | WD40_4 | 205 | 244 | 30.0 | IPR001680 |
| SMART | SM00320 | WD40_4 | 39 | 78 | 5.9E-9 | IPR001680 |
| SMART | SM00320 | WD40_4 | 657 | 696 | 9.5E-7 | IPR001680 |
| SMART | SM00320 | WD40_4 | 611 | 654 | 0.85 | IPR001680 |
| SMART | SM00320 | WD40_4 | 136 | 176 | 0.068 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 46 | 87 | 16.323217 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 664 | 696 | 9.171722 | IPR001680 |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 46 | 78 | 12.789221 | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 538 | 554 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 493 | 514 | - | - |
| MobiDBLite | mobidb-lite | consensus disorder prediction | 491 | 562 | - | - |
Gene Ontology
Molecular Function:
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT5G10940.2 | transducin family protein / WD-40 repeat family protein. | 0 |
| RefSeq | XP_017248095.1 | PREDICTED: WD and tetratricopeptide repeats protein 1 [Daucus carota subsp. sativus] | 0 |
| Q94BQ3 | Protein ALTERED SEED GERMINATION 2 OS=Arabidopsis thaliana OX=3702 GN=ASG2 PE=1 SV=1 | 0 | |
| TrEMBL | A0A165Z9E3 | WD and tetratricopeptide repeats protein 1 OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_012867 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 24.448376 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 16.757803 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 27.550941 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 23.718229 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 25.057705 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 34.864712 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 27.240633 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 34.906551 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 13.639435 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 12.549537 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 14.512907 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 16.376261 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 12.653903 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 14.281331 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 10.936189 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 9.78866 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 11.994294 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 10.70321 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 6.610877 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 7.667727 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 8.375939 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 13.51885 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 15.447227 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 12.549383 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 12.89528 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 11.694117 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 9.603521 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 9.463639 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 13.527794 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 3.467284 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 4.8264 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 3.782825 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 2.163093 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 4.919886 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 2.903603 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 2.240934 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 2.579799 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 1.601535 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 6.35789 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 2.439009 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 1.66 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 3.346667 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 7.645531 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 15.285024 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 16.104551 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 3.877893 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 15.864248 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 17.38098 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 17.081375 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 13.952344 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 3 | jg10793, jg10794, jg6141 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_1474 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah023747 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_1g008160 |
| Amaranthaceae | Salicornia bigelovii | 3 | Sbi_jg4152, Sbi_jg49651, Sbi_jg49653 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg5605 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00001009 |
| Amaranthaceae | Suaeda glauca | 1 | Sgl10548 |
| Amaranthaceae | Chenopodium album | 4 | gene:ENSEOMG00000014894, gene:ENSEOMG00000014912 ... |
| Amaranthaceae | Chenopodium quinoa | 1 | CQ.Regalona.r1.1BG0014930 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30041650 |
| Apiaceae | Apium graveolens | 1 | Ag3G00062 |
| Arecaceae | Cocos nucifera | 2 | COCNU_03G007350, scaffold006700G000060 |
| Arecaceae | Phoenix dactylifera | 2 | gene-LOC103701791, gene-LOC103711005 |
| Asparagaceae | Asparagus officinalis | 2 | AsparagusV1_03.1883.V1.1, AsparagusV1_03.1885.V1.1 |
| Asteraceae | Flaveria trinervia | 1 | Ftri10G09047 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT5G10940.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10012761m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp6g32550.v2.2 |
| Brassicaceae | Brassica nigra | 1 | BniB02g051090.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq03G1229 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl03G1334 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno03g12330 |
| Dunaliellaceae | Dunaliella salina | 1 | Dusal.0067s00013.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate07g04670 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG06.1560 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00026722 |
| Plumbaginaceae | Limonium bicolor | 1 | Lb1G03718 |
| Poaceae | Echinochloa crus-galli | 3 | AH01.4722, CH01.5298, Contig181.145 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_3AG0236560, gene-QOZ80_3BG0291480 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.4HG0406310.1 |
| Poaceae | Lolium multiflorum | 1 | gene-QYE76_037494 |
| Poaceae | Oryza coarctata | 2 | Oco05G004880, Oco06G005000 |
| Poaceae | Oryza sativa | 1 | LOC_Os03g08830.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_01G455500 |
| Poaceae | Puccinellia tenuiflora | 1 | Pt_Chr0107708 |
| Poaceae | Sporobolus alterniflorus | 2 | Chr04G002500, Chr07G008730 |
| Poaceae | Thinopyrum elongatum | 1 | Tel4E01G504800 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC4AG000190, gene_TRIDC4BG051620 |
| Poaceae | Triticum aestivum | 3 | TraesCS4A02G002000.2, TraesCS4B02G303100.1 ... |
| Poaceae | Zea mays | 2 | Zm00001eb006570_P001, Zm00001eb401530_P001 |
| Poaceae | Zoysia japonica | 2 | nbis-gene-2681, nbis-gene-4269 |
| Poaceae | Zoysia macrostachya | 2 | Zma_g1914, Zma_g4271 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG04.1872, evm.TU.LG06.483 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc02g30000 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_7_RagTag.939 |
| Rhizophoraceae | Carallia pectinifolia | 1 | nbisL1-mrna-18949 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-18054 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-6772 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000002l.719 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00010674 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-13045 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-10184 |
| Salicaceae | Populus euphratica | 3 | populus_peu18065, populus_peu32206, populus_peu32207 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132627600 |
| Solanaceae | Solanum chilense | 1 | SOLCI004763800 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107015575 |
| Tamaricaceae | Reaumuria soongarica | 1 | gene_8669 |
| Tamaricaceae | Tamarix chinensis | 1 | TC03G2990 |
| Zosteraceae | Zostera marina | 1 | Zosma06g17020.v3.1 |