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Biological genome sequence-based microRNA predicting method

A genome sequence and prediction method technology, applied in the field of microRNA prediction based on biological genome sequence, can solve the problems of high price and time-consuming molecular biology methods

Inactive Publication Date: 2017-12-29
HENAN UNIV OF SCI & TECH
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Problems solved by technology

However, molecular biology methods are time-consuming, expensive, and highly technically dependent, and bioinformatics methods make up for these shortcomings.

Method used

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  • Biological genome sequence-based microRNA predicting method
  • Biological genome sequence-based microRNA predicting method
  • Biological genome sequence-based microRNA predicting method

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Embodiment 1

[0021] Such as figure 1 , figure 2 As shown, a kind of microRNA prediction method based on biological genome sequence provided in this embodiment, the specific steps are as follows:

[0022] S1, download the genome sequence and mature miRNAs sequence of biological species from the database in the website;

[0023] S2. Perform blast comparison between the downloaded miRNA sequence and the genome sequence of the species, and search for homologous sequences with 0-3 base differences;

[0024] S3. Extract the microRNA precursor sequence to predict the stem-loop secondary structure, and delete the stem-loop sequence containing the encoded protein;

[0025] S4. Deleting sequences with inappropriate AU content and not conforming to the typical precursor microRNA stem-loop structure;

[0026] S5, through the screening step, obtain the existing microRNA molecules in the large mudskipper;

[0027] S6. Using stem-loop RT-PCR experiment to verify the predicted microRNA experimentally...

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Abstract

The invention discloses a biological genome sequence-based microRNA predicting method. According to the invention, a method for predicting microRNA in an animal genome sequence is designed and experimental verification is performed. The method comprises the following steps: firstly, downloading genome sequences and mature miRNAs sequences of biological species from a website; secondly, removing the sequences with inconsistent number of matched bases by performing genome balst comparison by utilizing downloaded miRNAs of other species, and extracting a precursor sequence of the microRNA for performing stem-and-loop structure predicting; thirdly, deleting predicted stem-and-loop sequences which contain encoding protein from the genome; fourthly, screening and deleting the sequences which have inappropriate AU content and are not accordance with typical structural characteristics of the precursor miRNA; fifthly, acquiring possible miRNAs genes; sixthly, verifying the predicted microRNA by utilizing a stem-loop RT-PCR experiment.

Description

technical field [0001] The invention relates to the technical field of fish genome DNA extraction, in particular to a microRNA prediction method based on biological genome sequences. Background technique [0002] MicroRNA (micro ribonucleic acid) is a class of endogenous non-coding small RNA molecules with a length of about 18-25nt. It plays a negative regulatory role at the post-transcriptional level by complementing target genes, and is widely involved in various biological processes, such as cell Development, differentiation, proliferation, apoptosis, metabolism, tumor metastasis, etc. Since the discovery of the first microRNA lin-4 in Caenorhabditis elegans in 1993 and the discovery of another important microRNA gene let-7 in C. elegans in 2000[1,2], The scientific community has set off an upsurge in finding and identifying microRNA. Currently, there are two commonly used methods for identifying miRNAs: molecular biology and bioinformatics. Molecular biology mainly in...

Claims

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Application Information

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IPC IPC(8): C12Q1/68C12N15/10G06F19/22
CPCC12N15/1003C12Q1/6888C12Q2600/178G16B30/00
Inventor 黄勇任洪涛高小婵熊建利
Owner HENAN UNIV OF SCI & TECH
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