RNA secondary structures in Dscam1 mutually exclusive splicing: unique evolutionary signature from the midge
The Drosophila melanogaster gene Dscam1 potentially generates 38,016 distinct isoforms via mutually exclusive splicing, which are required for both nervous and immune functions. However, the mechanism underlying splicing regulation remains obscure. Here we show apparent evolutionary signatures chara...
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ftpubmed:oai:pubmedcentral.nih.gov:7430681 2023-05-15T14:01:45+02:00 RNA secondary structures in Dscam1 mutually exclusive splicing: unique evolutionary signature from the midge Hong, Weiling Shi, Yang Xu, Bingbing Jin, Yongfeng 2020-09 http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7430681/ http://www.ncbi.nlm.nih.gov/pubmed/32471818 https://doi.org/10.1261/rna.075259.120 en eng Cold Spring Harbor Laboratory Press http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7430681/ http://www.ncbi.nlm.nih.gov/pubmed/32471818 http://dx.doi.org/10.1261/rna.075259.120 © 2020 Hong et al.; Published by Cold Spring Harbor Laboratory Press for the RNA Society http://creativecommons.org/licenses/by-nc/4.0/ This article is distributed exclusively by the RNA Society for the first 12 months after the full-issue publication date (see http://rnajournal.cshlp.org/site/misc/terms.xhtml). After 12 months, it is available under a Creative Commons License (Attribution-NonCommercial 4.0 International), as described at http://creativecommons.org/licenses/by-nc/4.0/. CC-BY-NC RNA Letter to the Editor Text 2020 ftpubmed https://doi.org/10.1261/rna.075259.120 2021-09-05T00:22:53Z The Drosophila melanogaster gene Dscam1 potentially generates 38,016 distinct isoforms via mutually exclusive splicing, which are required for both nervous and immune functions. However, the mechanism underlying splicing regulation remains obscure. Here we show apparent evolutionary signatures characteristic of competing RNA secondary structures in exon clusters 6 and 9 of Dscam1 in the two midge species (Belgica antarctica and Clunio marinus). Surprisingly, midge Dscam1 encodes only ∼6000 different isoforms through mutually exclusive splicing. Strikingly, the docking site of the exon 6 cluster is conserved in almost all insects and crustaceans but is specific in the midge; however, the docking site-selector base-pairings are conserved. Moreover, the docking site is complementary to all predicted selector sequences downstream from every variable exon 9 of the midge Dscam1, which is in accordance with the broad spectrum of their isoform expression. This suggests that these cis-elements mainly function through the formation of long-range base-pairings. This study provides a vital insight into the evolution and mechanism of Dscam1 alternative splicing. Text Antarc* Antarctica Belgica antarctica PubMed Central (PMC) RNA 26 9 1086 1093 |
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Letter to the Editor |
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Letter to the Editor Hong, Weiling Shi, Yang Xu, Bingbing Jin, Yongfeng RNA secondary structures in Dscam1 mutually exclusive splicing: unique evolutionary signature from the midge |
topic_facet |
Letter to the Editor |
description |
The Drosophila melanogaster gene Dscam1 potentially generates 38,016 distinct isoforms via mutually exclusive splicing, which are required for both nervous and immune functions. However, the mechanism underlying splicing regulation remains obscure. Here we show apparent evolutionary signatures characteristic of competing RNA secondary structures in exon clusters 6 and 9 of Dscam1 in the two midge species (Belgica antarctica and Clunio marinus). Surprisingly, midge Dscam1 encodes only ∼6000 different isoforms through mutually exclusive splicing. Strikingly, the docking site of the exon 6 cluster is conserved in almost all insects and crustaceans but is specific in the midge; however, the docking site-selector base-pairings are conserved. Moreover, the docking site is complementary to all predicted selector sequences downstream from every variable exon 9 of the midge Dscam1, which is in accordance with the broad spectrum of their isoform expression. This suggests that these cis-elements mainly function through the formation of long-range base-pairings. This study provides a vital insight into the evolution and mechanism of Dscam1 alternative splicing. |
format |
Text |
author |
Hong, Weiling Shi, Yang Xu, Bingbing Jin, Yongfeng |
author_facet |
Hong, Weiling Shi, Yang Xu, Bingbing Jin, Yongfeng |
author_sort |
Hong, Weiling |
title |
RNA secondary structures in Dscam1 mutually exclusive splicing: unique evolutionary signature from the midge |
title_short |
RNA secondary structures in Dscam1 mutually exclusive splicing: unique evolutionary signature from the midge |
title_full |
RNA secondary structures in Dscam1 mutually exclusive splicing: unique evolutionary signature from the midge |
title_fullStr |
RNA secondary structures in Dscam1 mutually exclusive splicing: unique evolutionary signature from the midge |
title_full_unstemmed |
RNA secondary structures in Dscam1 mutually exclusive splicing: unique evolutionary signature from the midge |
title_sort |
rna secondary structures in dscam1 mutually exclusive splicing: unique evolutionary signature from the midge |
publisher |
Cold Spring Harbor Laboratory Press |
publishDate |
2020 |
url |
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7430681/ http://www.ncbi.nlm.nih.gov/pubmed/32471818 https://doi.org/10.1261/rna.075259.120 |
genre |
Antarc* Antarctica Belgica antarctica |
genre_facet |
Antarc* Antarctica Belgica antarctica |
op_source |
RNA |
op_relation |
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7430681/ http://www.ncbi.nlm.nih.gov/pubmed/32471818 http://dx.doi.org/10.1261/rna.075259.120 |
op_rights |
© 2020 Hong et al.; Published by Cold Spring Harbor Laboratory Press for the RNA Society http://creativecommons.org/licenses/by-nc/4.0/ This article is distributed exclusively by the RNA Society for the first 12 months after the full-issue publication date (see http://rnajournal.cshlp.org/site/misc/terms.xhtml). After 12 months, it is available under a Creative Commons License (Attribution-NonCommercial 4.0 International), as described at http://creativecommons.org/licenses/by-nc/4.0/. |
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CC-BY-NC |
op_doi |
https://doi.org/10.1261/rna.075259.120 |
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RNA |
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26 |
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9 |
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1086 |
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1093 |
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