Basic Information
Locus ID:
Ag3G00987
Species & Taxonomic ID:
Apium graveolens & 4045
Genome Assembly:
GCA_009905375.1
Short Name:
TRIP-1
Description:
component of the eukaryotic translation initiation factor 3 (eIF-3) complex, which is involved in protein synthesis of a specialized repertoire of mRNAs and, together with other initiation factors, stimulates binding of mRNA and methionyl-tRNAi to the 40S ribosome. The eIF-3 complex specifically targets and initiates translation of a subset of mRNAs involved in cell proliferation
Maps and Mapping Data
| Chromosome | Start | End | Strand | ID |
|---|---|---|---|---|
| chr3 | 40881325 | 40885854 | + | Ag3G00987 |
Protein Data
Protein Properties:
| Theoretical pI | Molecular Weight | Instability Index | Aliphatic Index | GRAVY |
|---|---|---|---|---|
| 7.24 | 35,894.04 Da | 36.41 | 81.04 | -0.39 |
Protein Domain:
| Category | ID | Description | Start | End | Evalue/Score | InterPro ID |
|---|---|---|---|---|---|---|
| CDD | cd00200 | WD40 | 7 | 314 | 1.62883E-46 | - |
| Pfam | PF00400 | WD domain, G-beta repeat | 43 | 80 | 1.8E-7 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 188 | 219 | 2.7E-5 | IPR001680 |
| Pfam | PF00400 | WD domain, G-beta repeat | 283 | 314 | 7.1E-6 | IPR001680 |
| SUPERFAMILY | SSF50978 | WD40 repeat-like | 4 | 314 | 8.24E-59 | IPR036322 |
| Gene3D | G3DSA:2.130.10.10 | - | 1 | 326 | 4.4E-108 | IPR015943 |
| SMART | SM00320 | WD40_4 | 177 | 219 | 2.9E-7 | IPR001680 |
| SMART | SM00320 | WD40_4 | 222 | 262 | 78.0 | IPR001680 |
| SMART | SM00320 | WD40_4 | 1 | 38 | 27.0 | IPR001680 |
| SMART | SM00320 | WD40_4 | 135 | 174 | 1.9E-4 | IPR001680 |
| SMART | SM00320 | WD40_4 | 41 | 80 | 4.1E-10 | IPR001680 |
| SMART | SM00320 | WD40_4 | 277 | 316 | 1.4E-4 | IPR001680 |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 284 | 314 | 9.177421 | - |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 48 | 89 | 14.518635 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 6 | 47 | 10.34136 | IPR001680 |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 48 | 84 | 11.128319 | - |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 142 | 183 | 11.778342 | IPR001680 |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 187 | 222 | 11.602863 | - |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 187 | 228 | 15.086744 | IPR001680 |
| ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 284 | 314 | 10.942887 | IPR001680 |
| ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 142 | 179 | 8.913786 | - |
| ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 67 | 81 | - | IPR019775 |
| ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 161 | 175 | - | IPR019775 |
| PRINTS | PR00320 | G protein beta WD-40 repeat signature | 161 | 175 | 9.5E-7 | IPR020472 |
| PRINTS | PR00320 | G protein beta WD-40 repeat signature | 206 | 220 | 9.5E-7 | IPR020472 |
| PRINTS | PR00320 | G protein beta WD-40 repeat signature | 67 | 81 | 9.5E-7 | IPR020472 |
| Hamap | MF_03008 | Eukaryotic translation initiation factor 3 subunit I [EIF3I]. | 1 | 326 | 74.829758 | IPR027525 |
Gene Ontology
Molecular Function:
KEGG Pathway
Best hit
| Source | Best Hit ID | Description | E-value |
|---|---|---|---|
| TAIR | AT2G46290.1 | Transducin/WD40 repeat-like superfamily protein. | 0 |
| RefSeq | XP_017237272.1 | PREDICTED: eukaryotic translation initiation factor 3 subunit I-like [Daucus carota subsp. sativus] | 0 |
| Q38884 | Eukaryotic translation initiation factor 3 subunit I OS=Arabidopsis thaliana OX=3702 GN=TIF3I1 PE=2 SV=2 | 0 | |
| TrEMBL | I1J582 | Eukaryotic translation initiation factor 3 subunit I OS=Glycine max OX=3847 GN=100793485 PE=3 SV=1 | 0 |
Expression
| BioProject | Accession | TPM | Cultivar | Tissue | Development Stage | Sample Name | Description |
|---|---|---|---|---|---|---|---|
| PRJNA723697 | SRX10692252 | 145.67038 | Shengqin NO.2 | seed | S1-1 | S1-1 | initial formation stage (S1) |
| PRJNA723697 | SRX10692254 | 107.116692 | Shengqin NO.2 | seed | S1-3 | S1-3 | initial formation stage (S1) |
| PRJNA723697 | SRX10692255 | 100.11235 | Shengqin NO.2 | seed | S3-1 | S3-1 | middle development stage (S3) |
| PRJNA723697 | SRX10692256 | 95.496643 | Shengqin NO.2 | seed | S3-2 | S3-2 | middle development stage (S3) |
| PRJNA723697 | SRX10692257 | 99.875473 | Shengqin NO.2 | seed | S3-3 | S3-3 | middle development stage (S3) |
| PRJNA723697 | SRX10692258 | 99.348228 | Shengqin NO.2 | seed | S5-1 | S5-1 | maturation stage (S5) |
| PRJNA723697 | SRX10692259 | 88.351295 | Shengqin NO.2 | seed | S5-2 | S5-2 | maturation stage (S5) |
| PRJNA723697 | SRX10692260 | 87.281029 | Shengqin NO.2 | seed | S5-3 | S5-3 | maturation stage (S5) |
| PRJNA884666 | SRX17729272 | 123.959435 | celery | anther | W99A-r1 | male sterile line | |
| PRJNA884666 | SRX17729273 | 124.314461 | celery | anther | W99A-r2 | male sterile line | |
| PRJNA884666 | SRX17729274 | 121.429543 | celery | anther | W99A-r3 | male sterile line | |
| PRJNA884666 | SRX17729275 | 146.741547 | celery | anther | W99B-r1 | maintainer line | |
| PRJNA884666 | SRX17729276 | 141.04866 | celery | anther | W99B-r2 | maintainer line | |
| PRJNA884666 | SRX17729277 | 135.368362 | celery | anther | W99B-r3 | maintainer line | |
| PRJNA884180 | SRX17743889 | 83.518234 | var. secalinum Yablochny | collenchyma | Col_S1_rep1-1 | ||
| PRJNA884180 | SRX17748056 | 98.762756 | var. secalinum Yablochny | collenchyma | Col_S1_rep3 | biological replicate 3 | |
| PRJNA884180 | SRX17748057 | 96.01635 | var. secalinum Yablochny | collenchyma | Col_S1_rep4 | biological replicate 4 | |
| PRJNA884180 | SRX17748678 | 94.627739 | var. secalinum Yablochny | parenchyma | Par_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748679 | 102.336525 | var. secalinum Yablochny | parenchyma | Par_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748680 | 113.939247 | var. secalinum Yablochny | parenchyma | Par_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748681 | 112.727234 | var. secalinum Yablochny | parenchyma | Par_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17748898 | 126.622269 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17748899 | 119.36763 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17748900 | 127.904961 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17748901 | 138.129257 | var. secalinum Yablochny | vascular bundle | Vas_S1_rep4 | Biological replicate 4 | |
| PRJNA884180 | SRX17749129 | 105.043571 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep1 | Biological replicate 1 | |
| PRJNA884180 | SRX17749130 | 96.334419 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep2 | Biological replicate 2 | |
| PRJNA884180 | SRX17749131 | 95.744476 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep3 | Biological replicate 3 | |
| PRJNA884180 | SRX17749132 | 103.410248 | var. secalinum Yablochny | part of the celery petiole without collenchyma strands | Collenchyma-free_S1_rep4 | Biological replicate 4 | |
| PRJNA1124269 | SRX24936411 | 47.420948 | leaf | CK1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936412 | 68.819504 | leaf | CK2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936413 | 60.809341 | leaf | CK3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936414 | 77.851868 | leaf | D1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936415 | 97.54686 | leaf | D2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936416 | 79.570633 | leaf | D3 | replicate=biological replicate3 | ||
| PRJNA1124269 | SRX24936417 | 62.941853 | leaf | MD1 | replicate=biological replicate1 | ||
| PRJNA1124269 | SRX24936418 | 50.618404 | leaf | MD2 | replicate=biological replicate2 | ||
| PRJNA1124269 | SRX24936419 | 55.57037 | leaf | MD3 | replicate=biological replicate3 | ||
| PRJNA387092 | SRX2833309 | 106.257141 | shanghaihuangxin | leaf | leaves between 0.5 and 1 cm in breadth, folded; | stage 2 | |
| PRJNA387092 | SRX2833321 | 71.789047 | shanghaihuangxin | leaf | leaves between 2and 2.5 cm in breadth, nearly unfolded, with clear stem exten-sion | stage 5 | |
| PRJNA387092 | SRX2833323 | 48.148911 | shanghaihuangxin | leaf | leaves >3 cm, unfolded, with clearstem extension | stage 7 | |
| PRJNA543957 | SRX5879598 | 134.675217 | Zhangzhou lvqing | stem | Se3 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879599 | 94.433533 | Zhangzhou lvqing | stem | Se2 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879600 | 117.649849 | Zhangzhou lvqing | stem | Mock2 | mock | |
| PRJNA543957 | SRX5879601 | 116.713997 | Zhangzhou lvqing | stem | Mock1 | mock | |
| PRJNA543957 | SRX5879602 | 169.361908 | Zhangzhou lvqing | stem | Se1 | 100 ppm Na2SeO4 | |
| PRJNA543957 | SRX5879603 | 93.532524 | Zhangzhou lvqing | stem | Mock3 | mock | |
| PRJNA609149 | SRX7815917 | 164.863785 | Jinnan Shiqin | flower bud | early flower bud | early flower bud | |
| PRJNA609149 | SRX7815918 | 122.293808 | Jinnan Shiqin | flower bud | middle flower bud | middle flower bud | |
| PRJNA609149 | SRX7815919 | 129.835526 | Jinnan Shiqin | flower bud | early flowering period | early flowering period |
Orthology
| Family | Species | Count | Orthologous Genes |
|---|---|---|---|
| Acanthaceae | Avicennia marina | 1 | jg12290 |
| Aizoaceae | Mesembryanthemum crystallinum | 2 | gene_25378, gene_3993 |
| Amaranthaceae | Atriplex hortensis | 2 | Ah014908, Ah019684 |
| Amaranthaceae | Beta vulgaris | 1 | BVRB_5g111430 |
| Amaranthaceae | Salicornia bigelovii | 2 | Sbi_jg31789, Sbi_jg57529 |
| Amaranthaceae | Salicornia europaea | 1 | Seu_jg25213 |
| Amaranthaceae | Suaeda aralocaspica | 1 | GOSA_00026622 |
| Amaranthaceae | Suaeda glauca | 5 | Sgl45239, Sgl50022, Sgl54127, Sgl54133, Sgl59450 |
| Amaranthaceae | Chenopodium album | 3 | gene:ENSEOMG00000015092, gene:ENSEOMG00000032252 ... |
| Amaranthaceae | Chenopodium quinoa | 3 | CQ.Regalona.r1.3AG0011490, CQ.Regalona.r1.3AG0011550 ... |
| Anacardiaceae | Pistacia vera | 1 | pistato.v30219370 |
| Apiaceae | Apium graveolens | 3 | Ag10G00618, Ag3G00987, Ag7G01074 |
| Arecaceae | Cocos nucifera | 3 | COCNU_03G006790, COCNU_05G006000, scaffold001054G000110 |
| Arecaceae | Phoenix dactylifera | 3 | gene-LOC103701749, gene-LOC103720237, gene-LOC120107370 |
| Asparagaceae | Asparagus officinalis | 3 | AsparagusV1_01.3302.V1.1, AsparagusV1_03.225.V1.1 ... |
| Asteraceae | Flaveria trinervia | 2 | Ftri16G10205, Ftri18G02235 |
| Brassicaceae | Arabidopsis thaliana | 2 | AT2G46280.1, AT2G46290.1 |
| Brassicaceae | Eutrema salsugineum | 1 | Thhalv10004580m.g.v1.0 |
| Brassicaceae | Schrenkiella parvula | 2 | Sp2g16660.v2.2, Sp4g28330.v2.2 |
| Brassicaceae | Brassica nigra | 2 | BniB02g067630.2N, BniB04g007230.2N |
| Casuarinaceae | Casuarina equisetifolia | 1 | Ceq05G0360 |
| Casuarinaceae | Casuarina glauca | 1 | Cgl05G0376 |
| Cymodoceaceae | Cymodocea nodosa | 1 | gene.Cymno04g18070 |
| Dunaliellaceae | Dunaliella salina | 3 | Dusal.0378s00007.v1.0, Dusal.0670s00006.v1.0 ... |
| Hydrocharitaceae | Thalassia testudinum | 1 | gene.Thate05g01870 |
| Nitrariaceae | Nitraria sibirica | 2 | evm.TU.LG02.2345, evm.TU.LG03.927 |
| Plantaginaceae | Plantago ovata | 4 | Pov_00016657, Pov_00021972, Pov_00031734, Pov_00038063 |
| Plumbaginaceae | Limonium bicolor | 3 | Lb2G09494, Lb2G14375, Lb2G14377 |
| Poaceae | Echinochloa crus-galli | 2 | AH03.316, CH03.465 |
| Poaceae | Eleusine coracana subsp. coracana | 2 | gene-QOZ80_7AG0556070, gene-QOZ80_7BG0587010 |
| Poaceae | Hordeum vulgare | 1 | HORVU.MOREX.r3.4HG0370630.1 |
| Poaceae | Oryza coarctata | 2 | Oco21G008310, Oco22G009580 |
| Poaceae | Oryza sativa | 2 | LOC_Os05g16660.2, LOC_Os08g21660.1 |
| Poaceae | Paspalum vaginatum | 1 | gene-BS78_03G222500 |
| Poaceae | Puccinellia tenuiflora | 2 | Pt_Chr0304402, Pt_Chr0304462 |
| Poaceae | Sporobolus alterniflorus | 3 | Chr01G020880, Chr12G017140, Chr22G010680 |
| Poaceae | Thinopyrum elongatum | 2 | Tel2E01G867500, Tel4E01G236200 |
| Poaceae | Triticum dicoccoides | 4 | gene_TRIDC2AG071850, gene_TRIDC2BG077770 ... |
| Poaceae | Triticum aestivum | 5 | TraesCS2A02G511400.1, TraesCS2B02G539500.1 ... |
| Poaceae | Zea mays | 2 | Zm00001eb117170_P001, Zm00001eb300780_P001 |
| Poaceae | Zoysia japonica | 2 | nbis-gene-35748, nbis-gene-51850 |
| Poaceae | Zoysia macrostachya | 2 | Zma_g4755, Zma_g6000 |
| Portulacaceae | Portulaca oleracea | 2 | evm.TU.LG02.2302, evm.TU.LG23.530 |
| Posidoniaceae | Posidonia oceanica | 1 | gene.Posoc03g10300 |
| Rhizophoraceae | Bruguiera sexangula | 2 | evm.TU.Scaffold_5_RagTag.169, evm.TU.Scaffold_9_RagTag.142 |
| Rhizophoraceae | Carallia pectinifolia | 1 | nbisL1-mrna-11138 |
| Rhizophoraceae | Ceriops tagal | 1 | nbisL1-mrna-9750 |
| Rhizophoraceae | Ceriops zippeliana | 2 | nbisL1-mrna-10621, nbisL1-mrna-7558 |
| Rhizophoraceae | Kandelia candel | 1 | evm.TU.utg000006l.105 |
| Rhizophoraceae | Kandelia obovata | 1 | Maker00013770 |
| Rhizophoraceae | Rhizophora apiculata | 1 | nbisL1-mrna-9127 |
| Rhizophoraceae | Rhizophora mangle | 1 | nbisL1-mrna-15356 |
| Salicaceae | Populus euphratica | 2 | populus_peu07274, populus_peu21271 |
| Solanaceae | Lycium barbarum | 1 | gene-LOC132627110 |
| Solanaceae | Solanum chilense | 1 | SOLCI004187400 |
| Solanaceae | Solanum pennellii | 1 | gene-LOC107004968 |
| Tamaricaceae | Reaumuria soongarica | 1 | gene_1135 |
| Tamaricaceae | Tamarix chinensis | 2 | TC04G2929, TC07G0892 |
| Zosteraceae | Zostera marina | 2 | Zosma03g34390.v3.1, Zosma05g07000.v3.1 |