A method for analyzing the gene sequence structure of non-model organism transcriptome

Abstract

The invention discloses a method for analyzing a structure of a transcriptome gene sequence of a non-model organism. The method comprises the following steps: (1) obtaining an optimal comparison result; (2) determining a protein coding mode and determining a translation termination position; (3) determining a coding starting position of the gene sequence; (4) classifying by utilizing a gene mode; (5) determining a nucleic acid sequence of a coding manner by utilizing a transcriptome sequence and training a nucleic acid sequence mode of a coding protein by utilizing a Markov chain; (6) determining a coding manner of a protein coding sequence of a gene which is not compared. The method disclosed by the invention is used for carrying out high-throughput structural analysis on a lot of gene sequences obtained by transcriptome sequencing of any non-model organism and function annotation of the transcriptome sequence is automatically finished in an analysis process; a Markov model and a support vector machine model are constructed by utilizing a compared high-reliability protein coding nucleic acid sequence, and a gene sequence which is not compared is analyzed, so that the credibility of the structural analysis of the sequence is higher.

Description

technical field [0001] The invention relates to the field of gene analysis bioinformatics, in particular to a method for analyzing the gene sequence structure of a non-model organism transcriptome. Background technique [0002] A gene is a nucleic acid sequence with biological functions in a cell. The translated protein directly participates in various physiological and biochemical reactions of the cell and is the basis for the survival of the cell. One of the most important directions of life science research in recent years is the exploration of gene function, so the starting point of many biological basic research is to determine the number and type of genes of the species. Traditional gene homologous cloning provides a reliable research method for the acquisition and research of biological gene sequences, but gene cloning can only be performed on individual gene sequences one by one, and it is difficult to perform high-throughput sequencing of all gene sequences in cells...

AI Technical Summary

Problems solved by technology

[0005] The purpose of the present invention is to provide a non-model organism transcriptome gene sequence structure analysis method that can greatly improve the prediction accuracy of the gene coding method and ensure the protein function of most of the gene sequence translation, so as to solve the problems raised in the above-mentioned background technology. The existing large-scale gene sequence structure analysis method has high false positives and cannot guarantee the function of the translated protein sequence

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