Repository details
Expressed Sequence Tags database
Name of repository
Expressed Sequence Tags database
Additional name(s)
- dbEST
- NCBI EST
Repository URL
Subject(s)
Description
dbEST is a division of GenBank that contains sequence data and other information on "single-pass" cDNA sequences, or "Expressed Sequence Tags", from a number of organisms. Expressed Sequence Tags (ESTs) are short (usually about 300-500 bp), single-pass sequence reads from mRNA (cDNA). Typically they are produced in large batches. They represent a snapshot of genes expressed in a given tissue and/or at a given developmental stage. They are tags (some coding, others not) of expression for a given cDNA library.
Most EST projects develop large numbers of sequences. These are commonly submitted to GenBank and dbEST as batches of dozens to thousands of entries, with a great deal of redundancy in the citation, submitter and library information. To improve the efficiency of the submission process for this type of data, we have designed a special streamlined submission process and data format.
dbEST also includes sequences that are longer than the traditional ESTs, or are produced as single sequences or in small batches. Among these sequences are products of differential display experiments and RACE experiments. The thing that these sequences have in common with traditional ESTs, regardless of length, quality, or quantity, is that there is little information that can be annotated in the record.
If a sequence is later characterized and annotated with biological features such as a coding region, 5'UTR, or 3'UTR, it should be submitted through the regular GenBank submissions procedure (via BankIt or Sequin), even if part of the sequence is already in dbEST.
dbEST is reserved for single-pass reads. Assembled sequences should not be submitted to dbEST. GenBank will accept assembled EST submissions for the forthcoming TSA (Transcriptome Shotgun Assembly) division. The individual reads which make up the assembly should be submitted to dbEST, the Trace archive or the Short Read Archive (SRA) prior to the submission of the assemblies.
Contact(s)
- gb-admin@ncbi.nlm.nih.gov
- info@ncbi.nlm.nih.gov
- https://www.ncbi.nlm.nih.gov/home/about/contact/
Keyword(s)
Persistent identifier(s) of the repository
Repository size
485.518.083 public entries
Repository type(s)
- disciplinary
Research data repository language(s)
- English
Data and/or service provider
- dataProvider
Institutions (1)
Institution
Additional name(s)
- NIH, NLM, NCBI
Country
Type(s) of responsibility
- general
- technical
Type of institution
non-profit
Policies (1)
Database access
Type of access to research data repository
open
Data access (1)
Type of access to data
open
Data licenses (3)
Data upload (1)
Type of data upload
restricted
Data upload restriction type(s)
- registration
Data upload license (1)
Data upload license name
Persistent identifier system(s)
- other
Name of the repository software
- unknown
Versioning
yes
Enhanced Publication
unknown
Quality management
yes
Application programming interfaces (1)
Remarks
Entry date
2014-03-10
Last update
2024-11-11
Cite this re3data.org record:
re3data.org: Expressed Sequence Tags database; editing status 2024-11-11; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3FG8P last accessed: 2025-04-25- Current projects
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- Cite this service: re3data.org - Registry of Research Data Repositories. https://doi.org/10.17616/R3D last accessed: 2025-04-25
