output/ALAS/Alas_dsRNA_region_splitter.tsv Version 1
_p_RNAinVAL/_I_01_LabTrials/_S_01_TargetSelect/_A_08_SelTargetsA-dry/
SEEK ID: https://fairdomhub.org/data_files/4660?version=1
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output/ALAS/Alas_dsRNA_region_splitter.tsv
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Query_ID Query_length Target_ID Target_length Target_description E-value Identity% Aligned_seq_length Score Positives% Gaps% region_for_dsRNA_27-47 design 21 DPOGS119809-TA 540 0.097 95 21 33.7 0 region_for_dsRNA_37-57 design 21 XM_961636.2 1923 PREDICTED: Tribolium castaneum 5-aminolevulinate synthase, erythroid-specific, mitochondrial (LOC655127), mRNA 0.097 95 21 33.7 0 region_for_dsRNA_38-58 design 21 XM_961636.2 1923 PREDICTED: Tribolium castaneum 5-aminolevulinate synthase, erythroid-specific, mitochondrial (LOC655127), mRNA 0.028 100 19 35.6 0 region_for_dsRNA_39-59 design 21 XM_961636.2 1923 PREDICTED: Tribolium castaneum 5-aminolevulinate synthase, erythroid-specific, mitochondrial (LOC655127), mRNA 0.008 100 20 37.4 0 region_for_dsRNA_40-60 design 21 XM_961636.2 1923 PREDICTED: Tribolium castaneum 5-aminolevulinate synthase, erythroid-specific, mitochondrial (LOC655127), mRNA 0.008 100 20 37.4 0 region_for_dsRNA_41-61 design 21 XM_961636.2 1923 PREDICTED: Tribolium castaneum 5-aminolevulinate synthase, erythroid-specific, mitochondrial (LOC655127), mRNA 0.028 100 19 35.6 0 region_for_dsRNA_42-62 design 21 XM_012283802.1 2550 PREDICTED: Megachile rotundata SH3KBP1-binding protein 1 (LOC100882439), transcript variant X2, mRNA 0.097 100 18 33.7 0 region_for_dsRNA_43-63 design 21 XM_012283802.1 2550 PREDICTED: Megachile rotundata SH3KBP1-binding protein 1 (LOC100882439), transcript variant X2, mRNA 0.028 100 19 35.6 0 region_for_dsRNA_44-64 design 21 XM_012283802.1 2550 PREDICTED: Megachile rotundata SH3KBP1-binding protein 1 (LOC100882439), transcript variant X2, mRNA 0.028 100 19 35.6 0 region_for_dsRNA_45-65 design 21 XM_012283802.1 2550 PREDICTED: Megachile rotundata SH3KBP1-binding protein 1 (LOC100882439), transcript variant X2, mRNA 0.028 100 19 35.6 0 region_for_dsRNA_46-66 design 21 XM_012283802.1 2550 PREDICTED: Megachile rotundata SH3KBP1-binding protein 1 (LOC100882439), transcript variant X2, mRNA 0.097 100 18 33.7 0 region_for_dsRNA_56-76 design 21 XM_012313560.1 2820 PREDICTED: Bombus terrestris cytochrome P450 6B5-like (LOC100651693), transcript variant X5, mRNA 0.097 100 18 33.7 0 region_for_dsRNA_57-77 design 21 XM_012313560.1 2820 PREDICTED: Bombus terrestris cytochrome P450 6B5-like (LOC100651693), transcript variant X5, mRNA 0.097 100 18 33.7 0 region_for_dsRNA_58-78 design 21 XM_012313560.1 2820 PREDICTED: Bombus terrestris cytochrome P450 6B5-like (LOC100651693), transcript variant X5, mRNA 0.097 100 18 33.7 0 region_for_dsRNA_59-79 design 21 XM_012313560.1 2820 PREDICTED: Bombus terrestris cytochrome P450 6B5-like (LOC100651693), transcript variant X5, mRNA 0.097 100 18 33.7 0 region_for_dsRNA_60-80 design 21 DPOGS108354-TA 23172 0.097 100 18 33.7 0 region_for_dsRNA_61-81 design 21 DPOGS108354-TA 23172 0.097 100 18 33.7 0 region_for_dsRNA_62-82 design 21 DPOGS108354-TA 23172 0.097 100 18 33.7 0 region_for_dsRNA_218-238 design 21 XM_003395419.2 6298 PREDICTED: Bombus terrestris kinesin-like protein KIF21A (LOC100649572), transcript variant X2, mRNA 0.097 95 21 33.7 0 region_for_dsRNA_222-242 design 21 DPOGS100061-TA 2520 0.097 95 21 33.7 0 region_for_dsRNA_223-243 design 21 DPOGS100061-TA 2520 0.097 95 21 33.7 0 region_for_dsRNA_224-244 design 21 DPOGS100061-TA 2520 0.097 95 21 33.7 0 region_for_dsRNA_232-252 design 21 XR_001099809.1 9974 PREDICTED: Bombus terrestris Down syndrome cell adhesion molecule-like protein Dscam2 (LOC100649570), transcript variant X2, misc_RNA 0.097 100 18 33.7 0 region_for_dsRNA_233-253 design 21 XR_001099809.1 9974 PREDICTED: Bombus terrestris Down syndrome cell adhesion molecule-like protein Dscam2 (LOC100649570), transcript variant X2, misc_RNA 0.097 100 18 33.7 0 region_for_dsRNA_234-254 design 21 XM_006570996.1 4724 PREDICTED: Apis mellifera prostaglandin E2 receptor EP4 subtype-like (LOC724237), transcript variant X2, mRNA 0.028 100 19 35.6 0 region_for_dsRNA_235-255 design 21 XM_006570996.1 4724 PREDICTED: Apis mellifera prostaglandin E2 receptor EP4 subtype-like (LOC724237), transcript variant X2, mRNA 0.028 100 19 35.6 0 region_for_dsRNA_236-256 design 21 XM_006570996.1 4724 PREDICTED: Apis mellifera prostaglandin E2 receptor EP4 subtype-like (LOC724237), transcript variant X2, mRNA 0.028 100 19 35.6 0 region_for_dsRNA_237-257 design 21 XM_006570996.1 4724 PREDICTED: Apis mellifera prostaglandin E2 receptor EP4 subtype-like (LOC724237), transcript variant X2, mRNA 0.097 100 18 33.7 0 region_for_dsRNA_258-278 design 21 XM_012289341.1 2325 PREDICTED: Megachile rotundata calnexin-like (LOC100877628), transcript variant X2, mRNA 0.097 100 18 33.7 0 region_for_dsRNA_259-279 design 21 XM_012289341.1 2325 PREDICTED: Megachile rotundata calnexin-like (LOC100877628), transcript variant X2, mRNA 0.097 100 18 33.7 0 region_for_dsRNA_260-280 design 21 XM_012289341.1 2325 PREDICTED: Megachile rotundata calnexin-like (LOC100877628), transcript variant X2, mRNA 0.097 100 18 33.7 0 region_for_dsRNA_261-281 design 21 XM_012289341.1 2325 PREDICTED: Megachile rotundata calnexin-like (LOC100877628), transcript variant X2, mRNA 0.097 100 18 33.7 0 region_for_dsRNA_311-331 design 21 XM_012296199.1 1806 PREDICTED: Megachile rotundata 5-aminolevulinate synthase, erythroid-specific, mitochondrial (LOC100877263), transcript variant X7, mRNA 0.097 95 21 33.7 0 region_for_dsRNA_312-332 design 21 XM_012296199.1 1806 PREDICTED: Megachile rotundata 5-aminolevulinate synthase, erythroid-specific, mitochondrial (LOC100877263), transcript variant X7, mRNA 0.097 95 21 33.7 0 region_for_dsRNA_331-351 design 21 XM_012318535.1 10177 PREDICTED: Bombus terrestris lipid phosphate phosphohydrolase 1-like (LOC100651425), transcript variant X3, mRNA 0.097 95 21 33.7 0 region_for_dsRNA_350-370 design 21 XM_008209928.1 2287 PREDICTED: Nasonia vitripennis probable cytochrome P450 12a5, mitochondrial (LOC100114559), transcript variant X2, mRNA 0.097 95 21 33.7 0 region_for_dsRNA_405-425 design 21 XM_012294796.1 635 PREDICTED: Megachile rotundata eukaryotic translation elongation factor 1 epsilon-1 (LOC100876144), transcript variant X2, mRNA 0.097 100 18 33.7 0 region_for_dsRNA_406-426 design 21 XM_012294796.1 635 PREDICTED: Megachile rotundata eukaryotic translation elongation factor 1 epsilon-1 (LOC100876144), transcript variant X2, mRNA 0.097 100 18 33.7 0 region_for_dsRNA_407-427 design 21 XM_012294796.1 635 PREDICTED: Megachile rotundata eukaryotic translation elongation factor 1 epsilon-1 (LOC100876144), transcript variant X2, mRNA 0.097 100 18 33.7 0 region_for_dsRNA_408-428 design 21 XM_012294796.1 635 PREDICTED: Megachile rotundata eukaryotic translation elongation factor 1 epsilon-1 (LOC100876144), transcript variant X2, mRNA 0.097 95 21 33.7 0 region_for_dsRNA_409-429 design 21 XM_003704731.2 6206 PREDICTED: Megachile rotundata uncharacterized LOC100881431 (LOC100881431), mRNA 0.097 100 18 33.7 0 region_for_dsRNA_423-443 design 21 XM_012296825.1 2539 PREDICTED: Megachile rotundata general vesicular transport factor p115 (LOC100881695), transcript variant X4, mRNA 0.097 95 21 33.7 0 region_for_dsRNA_424-444 design 21 XM_012320454.1 2703 PREDICTED: Bombus terrestris general vesicular transport factor p115 (LOC100649048), transcript variant X2, mRNA 0.097 95 21 33.7 0 region_for_dsRNA_425-445 design 21 XM_012320454.1 2703 PREDICTED: Bombus terrestris general vesicular transport factor p115 (LOC100649048), transcript variant X2, mRNA 0.097 95 21 33.7 0 region_for_dsRNA_426-446 design 21 XM_012320454.1 2703 PREDICTED: Bombus terrestris general vesicular transport factor p115 (LOC100649048), transcript variant X2, mRNA 0.097 95 21 33.7 0 region_for_dsRNA_427-447 design 21 XM_012320454.1 2703 PREDICTED: Bombus terrestris general vesicular transport factor p115 (LOC100649048), transcript variant X2, mRNA 0.097 95 21 33.7 0 region_for_dsRNA_428-448 design 21 XM_012320454.1 2703 PREDICTED: Bombus terrestris general vesicular transport factor p115 (LOC100649048), transcript variant X2, mRNA 0.097 95 21 33.7 0 region_for_dsRNA_429-449 design 21 XM_012320454.1 2703 PREDICTED: Bombus terrestris general vesicular transport factor p115 (LOC100649048), transcript variant X2, mRNA 0.097 95 21 33.7 0 region_for_dsRNA_430-450 design 21 XM_012320454.1 2703 PREDICTED: Bombus terrestris general vesicular transport factor p115 (LOC100649048), transcript variant X2, mRNA 0.028 100 19 35.6 0 region_for_dsRNA_431-451 design 21 XM_012320454.1 2703 PREDICTED: Bombus terrestris general vesicular transport factor p115 (LOC100649048), transcript variant X2, mRNA 0.008 100 20 37.4 0 region_for_dsRNA_432-452 design 21 XM_012320454.1 2703 PREDICTED: Bombus terrestris general vesicular transport factor p115 (LOC100649048), transcript variant X2, mRNA 0.008 100 20 37.4 0 region_for_dsRNA_433-453 design 21 XM_008204155.1 1139 PREDICTED: Nasonia vitripennis uncharacterized LOC100115352 (LOC100115352), transcript variant X1, mRNA 0.028 100 19 35.6 0 region_for_dsRNA_434-454 design 21 XM_008204155.1 1139 PREDICTED: Nasonia vitripennis uncharacterized LOC100115352 (LOC100115352), transcript variant X1, mRNA 0.097 100 18 33.7 0 region_for_dsRNA_435-455 design 21 XM_624472.4 2010 PREDICTED: Apis mellifera 5-aminolevulinate synthase, erythroid-specific, mitochondrial-like (LOC413228), mRNA 0.097 95 21 33.7 0 region_for_dsRNA_439-459 design 21 XM_961636.2 1923 PREDICTED: Tribolium castaneum 5-aminolevulinate synthase, erythroid-specific, mitochondrial (LOC655127), mRNA 0.097 95 21 33.7 0 region_for_dsRNA_440-460 design 21 XM_961636.2 1923 PREDICTED: Tribolium castaneum 5-aminolevulinate synthase, erythroid-specific, mitochondrial (LOC655127), mRNA 0.097 95 21 33.7 0 region_for_dsRNA_441-461 design 21 XM_961636.2 1923 PREDICTED: Tribolium castaneum 5-aminolevulinate synthase, erythroid-specific, mitochondrial (LOC655127), mRNA 0.097 95 21 33.7 0 region_for_dsRNA_519-539 design 21 XM_008215808.1 1677 PREDICTED: Nasonia vitripennis uncharacterized LOC103317529 (LOC103317529), mRNA 0.097 100 18 33.7 0 region_for_dsRNA_520-540 design 21 XM_008215808.1 1677 PREDICTED: Nasonia vitripennis uncharacterized LOC103317529 (LOC103317529), mRNA 0.097 100 18 33.7 0 region_for_dsRNA_521-541 design 21 XM_003393021.2 1960 PREDICTED: Bombus terrestris 5-aminolevulinate synthase, erythroid-specific, mitochondrial (LOC100648776), mRNA 0.028 100 19 35.6 0 region_for_dsRNA_522-542 design 21 XM_003393021.2 1960 PREDICTED: Bombus terrestris 5-aminolevulinate synthase, erythroid-specific, mitochondrial (LOC100648776), mRNA 0.008 100 20 37.4 0 region_for_dsRNA_523-543 design 21 XM_003393021.2 1960 PREDICTED: Bombus terrestris 5-aminolevulinate synthase, erythroid-specific, mitochondrial (LOC100648776), mRNA 0.002 100 21 39.2 0 region_for_dsRNA_524-544 design 21 XM_003393021.2 1960 PREDICTED: Bombus terrestris 5-aminolevulinate synthase, erythroid-specific, mitochondrial (LOC100648776), mRNA 0.002 100 21 39.2 0 region_for_dsRNA_525-545 design 21 XM_003393021.2 1960 PREDICTED: Bombus terrestris 5-aminolevulinate synthase, erythroid-specific, mitochondrial (LOC100648776), mRNA 0.002 100 21 39.2 0 region_for_dsRNA_526-546 design 21 XM_003393021.2 1960 PREDICTED: Bombus terrestris 5-aminolevulinate synthase, erythroid-specific, mitochondrial (LOC100648776), mRNA 0.008 100 20 37.4 0 region_for_dsRNA_527-547 design 21 XM_003393021.2 1960 PREDICTED: Bombus terrestris 5-aminolevulinate synthase, erythroid-specific, mitochondrial (LOC100648776), mRNA 0.028 100 19 35.6 0 region_for_dsRNA_528-548 design 21 XM_003393021.2 1960 PREDICTED: Bombus terrestris 5-aminolevulinate synthase, erythroid-specific, mitochondrial (LOC100648776), mRNA 0.097 95 21 33.7 0 region_for_dsRNA_688-708 design 21 XM_003702077.2 1921 PREDICTED: Megachile rotundata uncharacterized LOC100881854 (LOC100881854), mRNA 0.097 95 21 33.7 0 region_for_dsRNA_689-709 design 21 XM_003702077.2 1921 PREDICTED: Megachile rotundata uncharacterized LOC100881854 (LOC100881854), mRNA 0.097 100 18 33.7 0 region_for_dsRNA_690-710 design 21 XM_003702077.2 1921 PREDICTED: Megachile rotundata uncharacterized LOC100881854 (LOC100881854), mRNA 0.097 100 18 33.7 0 region_for_dsRNA_691-711 design 21 XM_003702077.2 1921 PREDICTED: Megachile rotundata uncharacterized LOC100881854 (LOC100881854), mRNA 0.097 100 18 33.7 0 region_for_dsRNA_703-723 design 21 XM_003393021.2 1960 PREDICTED: Bombus terrestris 5-aminolevulinate synthase, erythroid-specific, mitochondrial (LOC100648776), mRNA 0.097 95 21 33.7 0 region_for_dsRNA_705-725 design 21 XM_003393021.2 1960 PREDICTED: Bombus terrestris 5-aminolevulinate synthase, erythroid-specific, mitochondrial (LOC100648776), mRNA 0.097 95 21 33.7 0 region_for_dsRNA_720-740 design 21 XM_393405.5 5676 PREDICTED: Apis mellifera ankyrin repeat domain 50 (ANKRD50), transcript variant X5, mRNA 0.097 95 21 33.7 0 region_for_dsRNA_727-747 design 21 XM_008203142.1 9090 PREDICTED: Tribolium castaneum fibrillin-2 (LOC663193), mRNA 0.097 95 21 33.7 0
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https://orcid.org/0000-0003-3644-7827PhD in Biotechnology, Research Associate at Department of Biotechnology and Systems Biology, National Institute of Biology
National Institute of Biology, Department of Biotechnology and Systems Biology projects
Projects: HYp - Spatiotemporal analysis of hypersensitive response to Potato virus Y in potato, pISA-tree, MOA - Multiomics analysis of potato response to Potato virus Y (PVY) infection, SUSPHIRE - Sustainable Bioproduction of Pheromones for Insect Pest Control in Agriculture, INDIE - Biotechnological production of sustainable indole, _p_stRT, ADAPT - Accelerated Development of multiple-stress tolerAnt PoTato, _p_RNAinVAL, tst, tst2, Playground
Web page: http://www.nib.si/eng/index.php/departments/department-of-biotechnology-and-systems-biology
This project’s main objective was to identify novel Colorado potato beetle gene targets for the development of specific RNAi insecticides and further validate prospective targets using transcriptomics. The work included gene selection, establishment of double-stranded RNA (dsRNA) production methodology and the evaluation of dsRNAs’ insecticidal potential in CPB feeding laboratory and field trials.
Programme: NIBSys
Public web page: http://projects.nib.si/rnainval/
Start date: 1st Nov 2014
End date: 31st Oct 2017
Short Name: 01_LabTrials Title: Laboratory trials Description: Selection of targets and their validation in trials performed in the laboratories and greenhouse at NIB Phenodata: ./phenodata_20210113.txt pISA Investigation creation date: 2021-01-13 pISA Investigation creator: Marko Petek Principal investigator: Marko Petek License: CC BY 4.0 Sharing permission: Private Upload to FAIRDOMHub: Yes
Submitter: Marko Petek
Studies: Investigation files, _S_01_TargetSelect, _S_02_dsRNAorder, _S_03_dsRNAprod, _S_04_Stages, _S_05_jun2016, _S_06_oct2016, _S_07_dec2016, _S_08_jan2017, _S_09_jun2017, _S_10_apr2018, _S_11_may2018
Assays: _A_00_Ecoli-dry, _A_00_jun2017_dsRNA_stabil-wet, _A_01_AgroRNA-wet, _A_01_LitData-dry, _A_01_dec2016-phenotyping, _A_01_jan2017-phenotyping, _A_01_jun2016-phenotyping, _A_01_jun2017-phenotyping, _A_01_jun2017-phenotyping, _A_01_may2018-phenotyping, _A_01_oct2016-phenotyping, _A_01_pIsol-wet, _A_02_UlrichTop100-BLAST, _A_02_dec2016-RNAisol, _A_02_jun2016-RNAisol, _A_02_jun2017-RNAisol, _A_02_plasmid-SangerSeq, _A_02_qPCR_ampl_test-wet, _A_03_RNaseItreat-wet, _A_03_dec2016-qPCR, _A_03_jun2016-qPCR, _A_03_jun2017-qPCR, _A_03_patentDB-BLAST, _A_03_stages-RNAisol, _A_04_ortho-BLAST, _A_04_prod-qPCR, _A_04_stages-qPCR, _A_05_CPB_gene-annot, _A_06_splitter_BLAST-dry, _A_07_MergeEvi-dry, _A_08_SelTargetsA-dry, _I_01_LabTrials-files, _S_01_TargetSelect-files, _S_02_dsRNAorder-files, _S_03_dsRNAprod-files, _S_04_Stages-files, _S_05_jun2016-files, _S_06_oct2016-files, _S_07_dec2016-files, _S_08_jan2017-files, _S_09_jun2017-files, _S_10_apr2018-files, _S_11_may2018-files
Short Name: 01_TargetSelect Title: Search for genes that might be good targets for control using dsRNAs (RNAi pesticides) Description: We will examine the results of RNAi screening experiments in model organisms (e.g. Drosophila melanogaster, Tribolium castaneum) as well as employ our previous data and literature knowledge on CPB gene expression and physiology Raw Data: pISA Study creation date: 2021-01-13 pISA Study creator: Marko Petek Principal investigator: Marko Petek License: CC BY 4.0 ...
Short Name: 08_SelTargetsA-dry Assay Class: DRY Assay Type: dry Title: Bioinformatics analyses for individual selected target genes Description: In depth bioinformatic analysis for each target gene using various tools to predict possible off-target effects and select a fragment sequence for dsRNA synthesis pISA Assay creation date: 2021-01-14 pISA Assay creator: Marko Petek Phenodata: None Featuredata: Data:
Submitter: Marko Petek
Assay type: Experimental Assay Type
Technology type: Technology Type
Investigation: _I_01_LabTrials
Study: _S_01_TargetSelect
