What is RefSeq used for?

RefSeq sequences form a foundation for medical, functional, and diversity studies. They provide a stable reference for genome annotation, gene identification and characterization, mutation and polymorphism analysis (especially RefSeqGene records), expression studies, and comparative analyses.

What is the difference between RefSeq and GenBank?

GenBank sequence records are owned by the original submitter and cannot be altered by a third party. RefSeq sequences are not part of the INSDC but are derived from INSDC sequences to provide non-redundant curated data representing our current knowledge of known genes.

What are RefSeq identifiers?

The RefSeq ID is a unique identifier given to a sequence in the NCBI RefSeq database. The RefSeq database is a curated, non-redundant set including genomic DNA contigs, mRNAs and proteins for known genes, and entire chromosomes. These variables are used to make the Web link to the RefSeq database.

What RefSeq complete?

A comprehensive, integrated, non-redundant, well-annotated set of reference sequences including genomic, transcript, and protein.

What is NM RefSeq?

The Reference Sequence (RefSeq) database is an open access, annotated and curated collection of publicly available nucleotide sequences (DNA, RNA) and their protein products. RefSeq was first introduced in 2000.

How many sequences are in RefSeq?

The database currently represents sequences from more than 55 000 organisms (>4800 viruses, >40 000 prokaryotes and >10 000 eukaryotes; RefSeq release 71), ranging from a single record to complete genomes.

What is RefSeq RNA?

How many genomes are in the RefSeq?

Abstract. The Reference Sequence (RefSeq) project at the National Center for Biotechnology Information (NCBI) contains nearly 200 000 bacterial and archaeal genomes and 150 million proteins with up-to-date annotation.

What is RefSeq NM?

The NCBI RefSeq Genes composite track shows human protein-coding and non-protein-coding genes taken from the NCBI RNA reference sequences collection (RefSeq). All subtracks use coordinates provided by RefSeq, except for the UCSC RefSeq track, which UCSC produces by realigning the RefSeq RNAs to the genome.

What is GenPept?

GenPept is a database of GenBank gene products, namely the translation of all CDS (coding sequence) features with a translation qualifier. GenPept is not an official release from the NCBI but is thoroughly maintained and synchronized with each new release of GenBank.

What is TrEMBL?

1. Introduction TrEMBL is a computer-annotated protein sequence database supplementing the SWISS-PROT Protein Sequence Data Bank. TrEMBL contains the translations of all coding sequences (CDS) present in the EMBL Nucleotide Sequence Database not yet integrated in SWISS-PROT.

What is EMBL format?

EMBL is a DNA and protein sequence file format used by a variety of DNA sequence programs. Each EMBL file contains sequence data, along with information about the sequence, such as the name, type, and description. EMBL files can store multiple sequences. An EMBL file consists of individual sequence entries.

The Reference Sequence (RefSeq) collection provides a comprehensive, integrated, non-redundant, well-annotated set of sequences, including genomic DNA, transcripts, and proteins. RefSeq sequences form a foundation for medical, functional, and diversity studies.

What is RefSeq functional element records?

RefSeq Functional Element Records. RefSeq Functional Element sequences are represented as follows: As DNA sequences encompassing the genomic range of one or more experimentally-validated functional elements. Based on the plus strand of the current human or mouse reference genome assembly, unless otherwise indicated.

How does RefSeq work for model organisms?

For each model organism, RefSeq aims to provide separate and linked records for the genomic DNA, the gene transcripts, and the proteins arising from those transcripts.

How is the RefSeq status determined?

The RefSeq status (e.g., REVIEWED etc) is either indicated by the collaborating group, or is inferred based on the supplied annotation. NCBI is providing annotation for some assembled genomic sequence data including human, mouse, rat, honey bee, chicken, chimpanzee (and others). This pipeline is automated and data is refreshed periodically.