Contents
What is a RefSeq transcript?
RefSeq genomes are copies of selected assembled genomes available in GenBank. RefSeq transcript and protein records are generated by several processes including: Computation. Eukaryotic Genome Annotation Pipeline. Prokaryotic Genome Annotation Pipeline.
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.
Is RefSeq a subset of GenBank?
RefSeq is limited to major organisms for which sufficient data are available (more than 66,000 distinct “named” organisms as of September 2011), while GenBank includes sequences for any organism submitted (approximately 250,000 different named organisms).
How do I download a RefSeq database?
To use the download service, run a search in Assembly, use facets to refine the set of genome assemblies of interest, open the “Download Assemblies” menu, choose the source database (GenBank or RefSeq), choose the file type, then click the Download button to start the download.
Why Refgene database is significant?
The RefSeq database provides a critical foundation for integrating sequence, genetic and functional information, and is used internationally as a standard for genome annotation. The collection is curated on an ongoing basis by collaborating groups and by NCBI staff.
Where is GenBank located?
Bethesda, MD
GenBank is built and distributed by the National Center for Biotechnology Information (NCBI), a division of the National Library of Medicine (NLM), located on the campus of the US National Institutes of Health (NIH) in Bethesda, MD, USA.
What is the purpose of GenBank?
The GenBank database is designed to provide and encourage access within the scientific community to the most up-to-date and comprehensive DNA sequence information.
Is accession number same as Doi?
An Accession Number (sometimes called a Document ID) is a unique number assigned by a particular database as an additional means of locating a specific article. Note that an Accession Number is distinct and unrelated to a document’s DOI number.
How many human clusters are currently in Unigene?
Together, a total of 59,500 UNIGENE clusters have been mapped, providing an early glimpse of a complete transcript map for the human genome….Table 1.
| Known genes | Anonymous ESTs | |
|---|---|---|
| UNIGENE clusters | 11191 | 75,925 |
| Singletons | 692 | 29,689 |
| UNIGENE clusters extended | 7237 | 22,795 |
| Average number of transcripts | 97 | 18 |
How do I download NCBI database?
The majority of NCBI data are available for downloading, either directly from the NCBI FTP site or by using software tools to download custom datasets.
- FTP. Download data from the NCBI FTP site.
- Aspera. High-speed downloads provided by Aspera software.
- Download Tools. Tools and APIs for downloading customized datasets.
Why are there so many RefSeq select transcripts?
The RefSeq Select transcript is usually well-supported by archived data, well-expressed, conserved and represents the biology of the gene. Many genes are represented by multiple RefSeq transcripts/proteins due to alternative splicing.
How are RefSeq transcripts and protein records generated?
RefSeq genomes are copies of selected assembled genomes available in GenBank. RefSeq transcript and protein records are generated by several processes including: Propagation from annotated genomes that are submitted to members of the International Nucleotide Sequence Database Collaboration (INSDC)
How are RefSeq sequences used in genetic research?
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. [ more… ]
Where can I find the RefSeq genome online?
RefSeq is accessible via BLAST , Entrez, and the NCBI FTP site ( RefSeq releases , and RefSeq Genomes ). Information is also available in NCBI’s Assembly, Genomes and Gene resources, and for some organisms additional information is available in NCBI’s genome browser Map Viewer .