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This article will explain in detail what is the use of Dfam database for you. The editor thinks it is very practical, so I share it with you as a reference. I hope you can get something after reading this article.

Transposable elements transposable elements account for a large part of eukaryotic genomes. Accurate annotation of transposable elements is helpful to study their biological characteristics and reveal the evolution of the genome.

The family information of transposable elements was constructed by multiple sequence alignment of transposable elements in multiple eukaryotes in Dfam database. The official website is as follows

Http://www.dfam.org/

At present, the latest version is Dfam 2.0. for each family, it is uniquely identified by a DF number, as shown below.

Dfam also provides a hidden Markov model, which can be used for sequence alignment. The download address is as follows.

Http://www.dfam.org/web_download/Release/Dfam_2.0/

Similar to Dfam, there is a Dfam Consensus database that classifies the repetitive sequences on the genome in detail, with the following links

Http://www.dfam-consensus.org/#/public/te_classes/

Low_Complexity stands for low complexity sequence, refers to rich in certain bases, such as AT-rich sequence; Tandem_Repeat represents tandem repeat sequence, motif length of 2-10bp tandem repeat sequence is called Simple_Repeat, also known as simple tandem repeat sequence or microsatellite sequence, motif length is about hundreds of bp tandem repeat sequence, called Satellite, satellite DNA sequence.

Interspersed_Repeat represents repetitive sequences scattered in many parts of the genome, such as transposons, pseudogenes and so on.

RepeatMasker uses data from the database to analyze repetitive sequences on the genome. The database provides sequence information of repeating elements, which can be downloaded.

This is the end of this article on "what is the use of Dfam database". I hope the above content can be helpful to you, so that you can learn more knowledge. if you think the article is good, please share it out for more people to see.

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