Using the web interface, the database can be searched by sequence, piRBase name, NCBI accession number and RNAdb name (27).
Such sites were found in 7 genes: SFRS11, SFRS1, FMNl2, LEPROT, NICN1, FHOD2, f3-contactin; if one is interested, the binding sites can be searched by sequence (Query 6 in Additional File 1, Section S1.4).
Protein-coding RNAs were searched by sequence similarity to the protein databases NCBI nonredundant and UniProt [ 65].
In this study, the candidate HGT genes in the genome of L. vannamei were searched by sequence homology comparison, phylogenetic analysis, and experimental confirmation of the candidates HGT genes.
Somatic mutations of BRAF, JAK2, HRAS, KRAS, NRAS, NF1, RAF1, RB1, RUNX1, SOS1, SPRED1 and STK11 genes were searched by sequencing exons and consensus splicing sites after PCR amplification of genomic DNA (Additional file 2).
The proteins are listed with their Flybase IDs, and a specific protein of interest can be searched by name or sequence.
The pineapple EST sequence database can be searched by cloneID, contigID, text, or by sequence homology to either individual EST sequences or contig consensus sequences.
All data in the database can be searched by keywords, GO terms, or by sequence using a BLAST web interface.
The online resource can be searched by text or by BLAST sequence homology.
First, single sequences can be searched by species as well as by partial identifiers for input sequences or assembled contigs.
Genome and gene sequences can be searched by a variety of tools for certain properties.
