Basic Information
Locus ID:
Ag3G02416
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
Tho complex subunit
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr3 | 274693152 | 274700149 | + | Ag3G02416 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 6.74 | 37,786.52 Da | 23.59 | 81.25 | -0.37 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd00200 | WD40 | 34 | 318 | 1.61693E-41 | - |
| Pfam | PF00400 | WD domain, G-beta repeat | 83 | 117 | 1.3E-4 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 35 | 69 | 1.1E-5 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 208 | 241 | 0.011 | IPR001680 |
| SUPERFAMILY | SSF50978 | WD40 repeat-like | 31 | 318 | 1.14E-59 | IPR036322 |
| Gene3D | G3DSA:2.130.10.10 | - | 79 | 167 | 1.0E-18 | IPR015943 |
| Gene3D | G3DSA:2.130.10.10 | - | 30 | 78 | 3.7E-10 | IPR015943 |
| Gene3D | G3DSA:2.130.10.10 | - | 168 | 332 | 1.6E-27 | IPR015943 |
| SMART | SM00320 | WD40_4 | 244 | 285 | 62.0 | IPR001680 |
| SMART | SM00320 | WD40_4 | 286 | 324 | 39.0 | IPR001680 |
| SMART | SM00320 | WD40_4 | 31 | 70 | 1.1E-7 | IPR001680 |
| SMART | SM00320 | WD40_4 | 77 | 117 | 7.3E-9 | IPR001680 |
| SMART | SM00320 | WD40_4 | 202 | 241 | 1.8E-7 | IPR001680 |
| SMART | SM00320 | WD40_4 | 161 | 199 | 24.0 | IPR001680 |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 38 | 72 | 10.732868 | - |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 209 | 243 | 9.757418 | - |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 38 | 72 | 12.914561 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 209 | 250 | 12.246197 | IPR001680 |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 84 | 122 | 12.182859 | - |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 84 | 126 | 15.454345 | IPR001680 |
| ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 104 | 118 | - | IPR019775 |
| PRINTS | PR00320 | G protein beta WD-40 repeat signature | 228 | 242 | 2.6E-7 | IPR020472 |
| PRINTS | PR00320 | G protein beta WD-40 repeat signature | 57 | 71 | 2.6E-7 | IPR020472 |
| PRINTS | PR00320 | G protein beta WD-40 repeat signature | 104 | 118 | 2.6E-7 | IPR020472 |
Gene Ontology
Molecular Function:
KEGG Pathway
KO Term:
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT5G56130.1 | Transducin/WD40 repeat-like superfamily protein. Encodes a component of the putative Arabidopsis THO/TREX complex: THO1 or HPR1 (At5g09860), THO2 (At1g24706), THO3 or TEX1 (At5g56130), THO5 (At5g42920, At1g45233), THO6 (At2g19430), and THO7 (At5g16790, At3g02950). THO/TREX complexes in animals have been implicated in the transport of mRNA precursors. Mutants of THO3/TEX1, THO1, THO6 accumulate reduced amount of small interfering (si)RNA, suggesting a role of the putative Arabidopsis THO/TREX in siRNA biosynthesis. | 0 |
| RefSeq | XP_017244055.1 | PREDICTED: THO complex subunit 3 [Daucus carota subsp. sativus] | 0 |
| Q9FKT5 | THO complex subunit 3 OS=Arabidopsis thaliana OX=3702 GN=THO3 PE=1 SV=1 | 0 | |
| TrEMBL | A0A165Y829 | WD_REPEATS_REGION domain-containing protein OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_013764 PE=4 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 27.258255 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 16.726454 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 13.123401 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 13.774765 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 14.177896 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 15.55241 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 14.486254 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 10.579157 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 23.577604 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 23.366179 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 24.25897 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 28.414209 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 27.4203 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 27.50069 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 12.715411 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 11.298995 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 17.369156 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 13.215924 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 13.737793 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 12.1529 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 12.429286 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 25.477573 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 30.558599 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 30.234823 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 23.176643 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 18.712166 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 15.707495 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 15.299802 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 17.180822 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 3.960343 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 6.130701 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 4.85277 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 5.402926 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 12.358681 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 6.952021 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 4.938901 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 4.0188 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 3.626368 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 13.315981 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 6.474198 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 5.57927 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 8.980723 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 10.796583 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 16.42647 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 15.393762 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 12.924892 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 16.020588 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 33.326 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 38.50481 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 35.718239 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 1 | jg24647 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_12091 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah007726 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_7g160810 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg25234, Sbi_jg9078 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg19515 |
| Amaranthaceae | Suaeda aralocaspica | 3 | GOSA_00007192, GOSA_00007193, GOSA_00011268 |
| Amaranthaceae | Suaeda glauca | 4 | Sgl43254, Sgl43828, Sgl48082, Sgl48594 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000009929, gene:ENSEOMG00000032802 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.8AG0013780, CQ.Regalona.r1.8BG0015120 |
| Anacardiaceae | Pistacia vera | 2 | pistato.v30120940, pistato.v30150750 |
| Apiaceae | Apium graveolens | 1 | Ag3G02416 |
| Arecaceae | Cocos nucifera | 1 | COCNU_11G011130 |
| Arecaceae | Phoenix dactylifera | 1 | gene-LOC103702358 |
| Asparagaceae | Asparagus officinalis | 2 | AsparagusV1_01.3534.V1.1, AsparagusV1_03.1648.V1.1 |
| Asteraceae | Flaveria trinervia | 1 | Ftri2G24820 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT5G56130.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10014152m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp6g17980.v2.2 |
| Brassicaceae | Brassica nigra | 1 | BniB02g034940.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq01G1559 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl01G1723 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno05g07900 |
| Dunaliellaceae | Dunaliella salina | 2 | Dusal.0156s00021.v1.0, Dusal.1492s00002.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate07g08570 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 1 | nbisL1-mrna-1498 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG05.2115 |
| Plantaginaceae | Plantago ovata | 1 | Pov_00037989 |
| Poaceae | Echinochloa crus-galli | 3 | AH03.1474, BH03.1627, CH03.1780 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_6AG0531330, gene-QOZ80_6BG0485130 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.5HG0471850.1 |
| Poaceae | Lolium multiflorum | 1 | gene-QYE76_004428 |
| Poaceae | Oryza coarctata | 3 | Oco06G017230, Oco17G002080, Oco18G002030 |
| Poaceae | Oryza sativa | 2 | LOC_Os03g32020.1, LOC_Os09g12710.1 |
| Poaceae | Paspalum vaginatum | 3 | gene-BS78_02G142500, gene-BS78_04G038900 ... |
| Poaceae | Puccinellia tenuiflora | 1 | Pt_Chr0702693 |
| Poaceae | Sporobolus alterniflorus | 3 | Chr10G012490, Chr11G009720, Chr14G011980 |
| Poaceae | Thinopyrum elongatum | 1 | Tel5E01G302900 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC5AG029060, gene_TRIDC5BG030580 |
| Poaceae | Triticum aestivum | 3 | TraesCS5A02G178200.2, TraesCS5B02G175900.2 ... |
| Poaceae | Zea mays | 1 | Zm00001eb309300_P001 |
| Poaceae | Zoysia japonica | 2 | nbis-gene-35485, nbis-gene-47931 |
| Poaceae | Zoysia macrostachya | 1 | Zma_g30138 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG02.670, evm.TU.LG09.1836 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc01g16510 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_7_RagTag.21 |
| Rhizophoraceae | Carallia pectinifolia | 1 | nbisL1-mrna-19737 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-3023 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-22380 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000028l.11 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00010788 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-7966 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-22549 |
| Salicaceae | Populus euphratica | 1 | populus_peu00025 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132618560 |
| Solanaceae | Solanum chilense | 1 | SOLCI002464400 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107026158 |
| Tamaricaceae | Reaumuria soongarica | 1 | gene_16945 |
| Tamaricaceae | Tamarix chinensis | 1 | TC06G0588 |
| Zosteraceae | Zostera marina | 1 | Zosma03g28940.v3.1 |