Hello researches
I'm planning to sequence about 800 bp region of a certain gene to assess its association with a certain disease. the question is , do i have to choose an intronc or exonic region? and why ?
best regards......
The intronic regions are the non coding regions of a sequence gene and has less potential for polymorphism compared to the exonic regions which are the coding regions and has more potentials for polymorphism/gene expression.
Intronic region are typically more variable than exonic because exonic encode the protein and is therefore more constrained by selective sweep. You have higher chance to find the causative SNP in exonic region of genes. It is also possible to have SNPs that influence the phenotype in non-coding regions but in general more in promoter regions than in introns.
Intronic regions are more variable than exons since they contain less of functional sequence and, thus, are less subject to purifying selection. There are (rare) exceptions, for example, if splicing is regulated and the intron is packed with regulatory signals. These may be identified if you do a sequence comparison to related species. Your target species is which?
I recommend to go for the exonic variants first. Only if you cannot find a functional polymorphism (or none causative for your trait) I would go for the intronic variants.
thank you all for these answers .
Karol Szafranski,
I'm working on human
Introns are usually the non-coding sections RNA transcripts or the DNA encoding it. They are often spliced out just before the RNA molecule is translated into a protein. The sections translated into proteins are exons. It is sometimes possible to have some polymorphic variants on the non-coding regions. I will therefore suggest that you do for both coding (exonic) and non-coding (intronic) regions, if time and resources permits, and compare your outcomes. Silas
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