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This article is about what the circRNADb database is used for. Xiaobian thinks it is quite practical, so share it with everyone for reference. Let's follow Xiaobian and have a look.

CircRNA is a newly discovered class of ncRNA and compared with linear pre-mRNA, it lacks the 5'cap and 3' polyA structure, and its end-to-end connection forms a closed loop structure, which is more stable.

Related studies have shown that circular RNA has important biological functions, can regulate gene expression, as miRNA sponge and miRNA binding protein, some circular RNA also has protein coding potential, the study of circular RNA helps us to further understand the complexity of transcription level.

circRNAdb is a database of human circular RNAs. It only contains circular RNAs formed by reverse splicing of exon. The schematic diagram is as follows

CircRNAs in the database correspond to exon on linear circular RNA at the head and tail. The website is as follows

http://reprod.njmu.edu.cn/circrnadb/circRNADb.php

The latest version of the database contains 32914 circRNAs, providing not only basic information such as chromosome location and sequence, but also annotated information such as protein coding potential.

All circular RNA information can be viewed directly through the View All RNAs function in the navigation bar, as shown below

Click on the red circ_id to view the details. Take hsa_circ_00001 as an example, which contains the following results

1. basic information

The circRNA id prefix in this database is hsa_circ, followed by a unique 5-digit number. The basic information includes chromosome position, positive and negative strands, source gene, genome length, and corresponding samples. The schematic is as follows.

2. transcript information

According to the chromosomal position of the head and tail of the circular RNA, the RefSeq transcript is searched according to the position of the exon. Due to the existence of variable splicing, one circular RNA may correspond to multiple transcripts, and the longest splice length can be randomly selected.

3. protein coding potential

The positions of IRES and ORF are given as follows

4. references

Some simple summary analysis was performed based on all circRNAs included in the database.

1. Statistics on the number of circular RNA on chromosomes

2. Distribution of circular RNA exons

3. circular RNA length distribution

4. Distribution of circular RNA exons

5. Distribution of circular RNA numbers corresponding to the same gene

The data in this database is freely downloadable and provides a reference for studying circular RNA in humans.

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