Introns: The Functional Benefits of Introns in Genomes

Jo, Bong Seok; Choi, Sun Shim

doi:10.5808/gi.2015.13.4.112

Cited by 264 publications

(186 citation statements)

References 72 publications

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“…While synonymous SNPs (sSNPs), although in the coding region, do not change the protein sequence encoded by the gene, they can contribute to variation in effects in at least two ways: sSNPs could affect mRNA stability and thus protein expression and enzymatic activity and sSNPs can affect protein conformation which have functional and clinical consequences (Hunt et al, 2009; Sauna and Kimchi-Sarfaty, 2011). Intronic SNPs have effects on splicing and gene expression, both of which have functional and clinical consequences (Cooper, 2010; Harrison, 2015; Jo and Choi, 2015). …”

Section: Discussionmentioning

confidence: 99%

Genetic correlates of the development of theta event related oscillations in adolescents and young adults

Chorlian

Rangaswamy

Manz

et al. 2017

International Journal of Psychophysiology

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The developmental trajectories of theta band (4–7 Hz) event-related oscillations (EROs), a key neurophysiological constituent of the P3 response, were assessed in 2170 adolescents and young adults ages 12 to 25. The theta EROs occurring in the P3 response, important indicators of neurocognitive function, were elicited during the evaluation of task-relevant target stimuli in visual and auditory oddball tasks. Associations between the theta EROs and genotypic variants of 4 KCNJ6 single nucleotide polymorphisms (SNPs) were found to vary with age, sex, scalp location, and task modality. Three of the four KCNJ6 SNPs studied here were found to be significantly associated with the same theta EROs in adults in a previous family genome wide association study. Since measures of the P3 response have been found to be a useful endophenotypes for the study of a number of clinical and behavioral disorders, studies of genetic effects on its development in adolescents and young adults may illuminate neurophysiological factors contributing to the onset of these conditions.

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Section: Discussionmentioning

confidence: 99%

Genetic correlates of the development of theta event related oscillations in adolescents and young adults

Chorlian

Rangaswamy

Manz

et al. 2017

International Journal of Psychophysiology

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“…Introns may influence gene expression in many ways, affecting each stage of mRNA processing and maturation, depending on whether the regulatory activity is provided by a regulatory element present in the intron sequence, or by the spliceosome (Chorev and Carmel, 2012;Jo and Choi, 2015). Intron-mediated enhancement (IME) is one of the most notable effects on gene transcription exerted by regulatory introns in plants (Mascarenhas et al, 1990;Luehrsen and Walbot, 1991;Akua et al, 2010).…”

Section: Introductionmentioning

confidence: 99%

Genome‐wide identification, phylogenetic classification, and exon–intron structure characterization of the tubulin and actin genes in flax (Linum usitatissimum)

Pydiura

Pirko

Galinousky

et al. 2018

Cell Biology International

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Flax (Linum usitatissimum L.) is a valuable food and fiber crop cultivated for its quality fiber and seed oil. α-, β-, γ-tubulins and actins are the main structural proteins of the cytoskeleton. α- and γ-tubulin and actin genes have not been characterized yet in the flax genome. In this study, we have identified 6 α-tubulin genes, 13 β-tubulin genes, 2 γ-tubulin genes, and 15 actin genes in the flax genome and analyzed the phylogenetic relationships between flax and Arabidopsis thaliana tubulin and actin genes. Six α-tubulin genes are represented by three paralogous pairs, among 13 β-tubulin genes 7 different isotypes can be distinguished, 6 of which are encoded by two paralogous genes each. γ-tubulin is represented by a paralogous pair of genes one of which may be not functional. Fifteen actin genes represent seven paralogous pairs-seven actin isotypes and a sequentially duplicated copy of one of the genes of one of the isotypes. Exon-intron structure analysis has shown intron length polymorphism within the β-tubulin genes and intron number variation among the α-tubulin gene: three or four introns are found in two or four genes, respectively. Intron positioning occurs at conservative sites, as observed in numerous other plant species. Flax actin genes show both intron length polymorphisms and variation in the number of intron that may be two or three. These data will be useful to support further studies on the specificity, functioning, regulation, and evolution of the flax cytoskeleton proteins.

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“…Intron has also an indirect role as shown by the correlation of intron length with the efficiency of natural selection and is known to provide a source of new genes, and several kinds noncoding functional RNA. Mutation in the intron can produce disease-associated allele or trait-associated SNP (Jo and Choi 2015). It can be inferred that SNP in the intron region is also important.…”

Section: B I O D I V E R S I T a S 18 (2): 795-800 April 2017 798mentioning

confidence: 99%

Short Communication: Population structure of mangrove crab Scylla oceanica in mangrove ecosystem of Tanjung Lesung, Banten, Indonesia

et al. 2017

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Abstract. Priyadi DA, Panjono, Bintara S, Hartatik T. 2017. The genotype of gene sequences. Biodiversitas 18: 795-800. The IGFBP-3 gene is a potential marker of cattle growth, which is related to the functions that influence the growth, energy metabolism, reproduction and immunity. The genome was isolated from whole blood samples of 10 Brahman cattle and 16 Brahman Cross cattle. Cattle IGFBP-3 gene that targeted in this study was located in the part of intron 2, exon 3 and part of intron 3. The gene targets were amplified using specific primers by Polymerase Chain Reaction (PCR) technique, resulting 563 bp amplification product. As data comparison to reveal the SNP, the GenBank sequences (n = 14) from various breed and countries were used. The objective of this study was to reveal the SNP on the Brahman and Brahman Cross IGFBP-3 gene. The results obtained 3 genotypes from one SNP that spread in the sample population. The SNP was located in intron 2 at position 3,930 (GA). The Polymorphism could be recognized by PvuII restriction enzymes. There was not enough evidence to associate the SNP with the phenotype (at pre-weaning age) of Brahman and Brahman Cross cattle. There was a genetic diversity in the population studied. Knowledgeable SNP could be used as genetic markers for further research on Brahman and Brahman Cross cattle.

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Introns: The Functional Benefits of Introns in Genomes

Cited by 264 publications

References 72 publications

Genetic correlates of the development of theta event related oscillations in adolescents and young adults

Genetic correlates of the development of theta event related oscillations in adolescents and young adults

Genome‐wide identification, phylogenetic classification, and exon–intron structure characterization of the tubulin and actin genes in flax (Linum usitatissimum)

Short Communication: Population structure of mangrove crab Scylla oceanica in mangrove ecosystem of Tanjung Lesung, Banten, Indonesia

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