What are the tools of NCBI?
BLAST (Basic Local Alignment Search Tool)
Which of the following will be used to match the protein query against translated nucleotide database?
Answer: BLASTx (translated nucleotide sequence searched against protein sequences): compares a nucleotide query sequence that is translated in six reading frames (resulting in six protein sequences) against a database of protein sequences.
What is nucleotide database in NCBI?
The Nucleotide database is a collection of sequences from several sources, including GenBank, RefSeq, TPA and PDB. Genome, gene and transcript sequence data provide the foundation for biomedical research and discovery.
Why NCBI is used?
NCBI is now a leading source for public biomedical databases, software tools for analyzing molecular and genomic data, and research in computational biology. Today NCBI creates and maintains over 40 integrated databases for the medical and scientific communities as well as the general public.
Which tool compares translated nucleotide query sequence against translated nucleotide?
BLASTx
BLASTx (translated nucleotide sequence searched against protein sequences): compares a nucleotide query sequence that is translated in six reading frames (resulting in six protein sequences) against a database of protein sequences.
How do I search translated nucleotide databases using a protein query?
tblastn: search translated nucleotide databases using a protein query. TBLASTN search translated nucleotide databases using a protein query. more… Use the browse button to upload a file from your local disk. The file may contain a single sequence or a list of sequences.
How do I get a nucleotide or protein sequence?
For a nucleotide sequence select the nucleotide blast service from the Basic BLAST section of the BLAST home page. For a protein sequence, select the blastx translating service. The following databases contain transcript sequences: Reference mRNA (refseq_mrna), Nucleotide collection (nr/nt), and the EST databases.
What is the nucleotide database?
The Nucleotide database is a collection of sequences from several sources, including GenBank, RefSeq, TPA and PDB. Genome, gene and transcript sequence data provide the foundation for biomedical research and discovery.
How do I use BLASTX to translate protein and transcript sequences?
For a protein sequence, select the blastx translating service. The following databases contain transcript sequences: Reference mRNA (refseq_mrna), Nucleotide collection (nr/nt), and the EST databases. Click the BLAST button to run the search and identify matching sequences.