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This option allows to search for desired target genes by gene identifier or sequence input (but not by both at the same time).

Select type of RNAi reagent

Choose long dsRNAs for the design of long dsRNAs (including esiRNAs) or siRNAs for the design of short interfering dsRNAs.

Select organism

Select the organism used for the RNAi experiment.

Search by gene identifier

The types of available gene identifiers depend on the database, where the annotations were retrieved from:



Available query identifiers

D. melanogaster

FBgn, CG identifiers and gene symbols (e.g. CG11992, FBgn0014018 or rel)

A. pisum

ACYPI, XM and LOC identifiers (from 'official gene consensus set', e.g. ACYPI006699, XM_001944230 or LOC100165774)

H. sapiens

Gene names, Entrez gene identifiers and RefSeq identifiers (e.g. RPS11, 6205 or NM_001015.3)

S. mediterranea

MAKER identifiers (mk4, from SmedGD) will work (e.g. mk4.023206.00)

S. cerevisiae, S. pombe

Ensembl gene identifiers (e.g. YHR055C for budding yeast, SPMIT.05 for fission yeast)

C. elegans

WBGene identifiers, sequence names and gene names (e.g. WBGene00006763, JC8.10 or unc-26)

In the example above the D. melanogaster gene wls was queried for the design of long dsRNAs. After submitting the query, E-RNAi shows the queried target genes as genome browser visualization including annotated isoforms and exons. Now sequences for the complete target gene, whole transcripts or certain exons can be selected as target sites. In the image below the exon wls:3 was selected as target site. The selection of multiple sequences is possible.

The 'Submit Selection' button leads to the settings page.

Paste or upload a sequence

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