Basic Information
Locus ID:
Ag9G02133
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Description:
Required for the formation of N(7)-methylguanine at position 46 (m7G46) in tRNA. In the complex, it is required to stabilize and induce conformational changes of the catalytic subunit
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr9 | 257091726 | 257096968 | + | Ag9G02133 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 5.41 | 47,263.14 Da | 37.72 | 94.13 | -0.04 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| Pfam | PF00400 | WD domain, G-beta repeat | 203 | 238 | 0.0015 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 64 | 94 | 1.2E-4 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 156 | 185 | 3.0E-4 | IPR001680 |
| SUPERFAMILY | SSF50978 | WD40 repeat-like | 29 | 286 | 1.03E-34 | IPR036322 |
| Gene3D | G3DSA:2.130.10.10 | - | 151 | 295 | 7.7E-19 | IPR015943 |
| Gene3D | G3DSA:2.130.10.10 | - | 27 | 150 | 1.3E-15 | IPR015943 |
| SMART | SM00320 | WD40_4 | 148 | 187 | 0.0097 | IPR001680 |
| SMART | SM00320 | WD40_4 | 52 | 95 | 6.0E-4 | IPR001680 |
| SMART | SM00320 | WD40_4 | 98 | 134 | 54.0 | IPR001680 |
| SMART | SM00320 | WD40_4 | 195 | 239 | 0.019 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 63 | 104 | 13.716598 | IPR001680 |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 63 | 98 | 10.996502 | - |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 225 | 248 | 10.475033 | IPR001680 |
| Hamap | MF_03056 | tRNA (guanine-N(7)-)-methyltransferase non-catalytic subunit <gene_name> [WDR4]. | 35 | 428 | 22.580589 | IPR028884 |
| Coils | Coil | Coil | 3 | 23 | - | - |
Gene Ontology
Biological Process:
Molecular Function:
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT1G03110.1 | Transducin/WD40 repeat-like superfamily protein. | 0 |
| RefSeq | XP_017229948.1 | PREDICTED: tRNA (guanine-N(7)-)-methyltransferase non-catalytic subunit wdr4 [Daucus carota subsp. sativus] | 0 |
| A4IGH4 | tRNA (guanine-N(7)-)-methyltransferase non-catalytic subunit wdr4 OS=Danio rerio OX=7955 GN=wdr4 PE=2 SV=2 | 0 | |
| TrEMBL | A0A166HC10 | tRNA (guanine-N(7)-)-methyltransferase non-catalytic subunit OS=Daucus carota subsp. sativus OX=79200 GN=DCAR_002720 PE=3 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 21.384567 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 13.111607 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 11.77107 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 11.850862 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 11.798708 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 16.653727 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 11.364676 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 9.361648 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 23.736135 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 26.659521 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 24.15061 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 27.900246 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 28.507242 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 20.784225 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 7.486649 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 10.399763 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 11.35183 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 9.660502 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 11.32768 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 8.977518 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 11.147501 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 14.153873 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 15.693783 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 15.813681 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 16.330873 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 10.393153 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 9.791273 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 11.908221 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 12.105356 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 2.344455 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 4.98621 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 3.595491 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 7.663093 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 10.032251 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 7.44747 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 5.130039 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 2.621241 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 4.253836 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 11.818714 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 5.015347 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 3.945745 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 8.037543 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 6.954444 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 23.215473 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 17.834188 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 13.437982 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 13.438241 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 27.956596 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 25.377171 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 23.668211 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 2 | jg35317, jg8780 |
| Aizoaceae | Mesembryanthemum crystallinum | 1 | gene_19403 |
| Amaranthaceae | Atriplex hortensis | 1 | Ah000362 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_5g119460 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg30737, Sbi_jg58524 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg28397 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00004963 |
| Amaranthaceae | Suaeda glauca | 2 | Sgl55006, Sgl60265 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000007408, gene:ENSEOMG00000022237 ... |
| Amaranthaceae | Chenopodium quinoa | 2 | CQ.Regalona.r1.5AG0024930, CQ.Regalona.r1.5BG0026410 |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30026950 |
| Apiaceae | Apium graveolens | 1 | Ag9G02133 |
| Arecaceae | Cocos nucifera | 1 | COCNU_03G001100 |
| Arecaceae | Phoenix dactylifera | 1 | gene-LOC103718085 |
| Asparagaceae | Asparagus officinalis | 1 | AsparagusV1_08.1891.V1.1 |
| Asteraceae | Flaveria trinervia | 1 | Ftri15G30253 |
| Brassicaceae | Arabidopsis thaliana | 1 | AT1G03110.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10007706m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 1 | Sp1g02120.v2.2 |
| Brassicaceae | Brassica nigra | 2 | BniB03g000350.2N, BniB06g047620.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq06G2096 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl06G2210 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno01g00770 |
| Dunaliellaceae | Dunaliella salina | 1 | Dusal.0647s00008.v1.0 |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate02g40370 |
| Malvaceae | Hibiscus hamabo Siebold & Zucc. | 2 | nbisL1-mrna-6309, nbisL1-mrna-9669 |
| Nitrariaceae | Nitraria sibirica | 1 | evm.TU.LG04.1096 |
| Plantaginaceae | Plantago ovata | 2 | Pov_00008028, Pov_00036794 |
| Plumbaginaceae | Limonium bicolor | 1 | Lb1G00569 |
| Poaceae | Echinochloa crus-galli | 3 | BH01.757, CH01.752, Contig309.104 |
| Poaceae | Eleusine coracana subsp. coracana | 3 | gene-QOZ80_3AG0216400, gene-QOZ80_3BG0261680 ... |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.5HG0510120.1 |
| Poaceae | Lolium multiflorum | 1 | gene-QYE76_061921 |
| Poaceae | Oryza coarctata | 2 | Oco05G023430, Oco06G024320 |
| Poaceae | Oryza sativa | 1 | LOC_Os03g53530.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_01G083100 |
| Poaceae | Puccinellia tenuiflora | 1 | Pt_Chr0107129 |
| Poaceae | Sporobolus alterniflorus | 4 | Chr01G005400, Chr04G028450, Chr07G027420, Chr12G037770 |
| Poaceae | Thinopyrum elongatum | 1 | Tel5E01G613000 |
| Poaceae | Triticum dicoccoides | 2 | gene_TRIDC5AG056320, gene_TRIDC5BG060320 |
| Poaceae | Triticum aestivum | 3 | TraesCS5A02G384800.1, TraesCS5B02G389600.1 ... |
| Poaceae | Zea mays | 1 | Zm00001eb215000_P001 |
| Poaceae | Zoysia japonica | 1 | nbis-gene-16130 |
| Poaceae | Zoysia macrostachya | 1 | Zma_g2810 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG01.2338, evm.TU.LG14.1507 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc03g01750 |
| Rhizophoraceae | Bruguiera sexangula | 1 | evm.TU.Scaffold_5_RagTag.1003 |
| Rhizophoraceae | Carallia pectinifolia | 1 | nbisL1-mrna-11344 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-5060 |
| Rhizophoraceae | Ceriops zippeliana | 1 | nbisL1-mrna-11616 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000006l.315 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00013017 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-9975 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-7623 |
| Salicaceae | Populus euphratica | 1 | populus_peu15061 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132605630 |
| Solanaceae | Solanum chilense | 1 | SOLCI002493800 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107022043 |
| Tamaricaceae | Reaumuria soongarica | 1 | STRG.2256_chr01_+ |
| Tamaricaceae | Tamarix chinensis | 1 | TC01G0842 |
| Zosteraceae | Zostera marina | 1 | Zosma06g26360.v3.1 |