Stable Intronic Sequences and Exon Skipping Events in the Human RPE65 Gene: Analysis of Expression in Retinal Pigment Epithelium Cells and Cell Culture Models
Currently, there is much interest in intronic sequence-containing long non-coding RNAs and the role of intronic transcription in regulation of cellular metabolism and fate. Several stable intronic sequence RNAs (sisRNAs) were recently implicated in regulation of parental genes. To investigate transc...
| Main Authors: | , , , , |
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| Format: | Article |
| Language: | English |
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Frontiers Media S.A.
2019-07-01
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| Series: | Frontiers in Genetics |
| Subjects: | |
| Online Access: | https://www.frontiersin.org/article/10.3389/fgene.2019.00634/full |
| _version_ | 1819057065658679296 |
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| author | Olga Postnikova Eugenia Poliakov Nady Golestaneh Igor B. Rogozin T. Michael Redmond |
| author_facet | Olga Postnikova Eugenia Poliakov Nady Golestaneh Igor B. Rogozin T. Michael Redmond |
| author_sort | Olga Postnikova |
| collection | DOAJ |
| description | Currently, there is much interest in intronic sequence-containing long non-coding RNAs and the role of intronic transcription in regulation of cellular metabolism and fate. Several stable intronic sequence RNAs (sisRNAs) were recently implicated in regulation of parental genes. To investigate transcription from introns of the RPE65 gene, we analyzed RNA-seq and Nanopore sequencing data from different cell models of human retinal pigment epithelium (RPE) and native bovine RPE. We discovered putative stable poly-adenylated transcripts with sequences corresponding to intronic regions of the RPE65 gene in the cytoplasm of RPE cells. These stable intronic sequences could be important for RPE65 transcription, splicing or translation. We also analyzed alternative splicing events in RPE65. Frequent exon skipping events involving exons 2, 3, and 7 were detected. The rate of these events was much higher in human RPE cell cultures compared with native RPE , consistent with lack of translation of RPE65 mRNA in cell cultures. |
| first_indexed | 2024-12-21T13:33:23Z |
| format | Article |
| id | doaj.art-797f02f0829b4ea598644c0502360203 |
| institution | Directory Open Access Journal |
| issn | 1664-8021 |
| language | English |
| last_indexed | 2024-12-21T13:33:23Z |
| publishDate | 2019-07-01 |
| publisher | Frontiers Media S.A. |
| record_format | Article |
| series | Frontiers in Genetics |
| spelling | doaj.art-797f02f0829b4ea598644c05023602032022-12-21T19:02:14ZengFrontiers Media S.A.Frontiers in Genetics1664-80212019-07-011010.3389/fgene.2019.00634465502Stable Intronic Sequences and Exon Skipping Events in the Human RPE65 Gene: Analysis of Expression in Retinal Pigment Epithelium Cells and Cell Culture ModelsOlga Postnikova0Eugenia Poliakov1Nady Golestaneh2Igor B. Rogozin3T. Michael Redmond4Laboratory of Retinal Cell & Molecular Biology, National Eye Institute, NIH, Bethesda, MD, United StatesLaboratory of Retinal Cell & Molecular Biology, National Eye Institute, NIH, Bethesda, MD, United StatesDepartments of Ophthalmology, Neurology, Biochemistry and Molecular & Cellular Biology, Georgetown University Medical Center, Washington, DC, United StatesNational Center for Biotechnology Information, National Library of Medicine, NIH, Bethesda, MD, United StatesLaboratory of Retinal Cell & Molecular Biology, National Eye Institute, NIH, Bethesda, MD, United StatesCurrently, there is much interest in intronic sequence-containing long non-coding RNAs and the role of intronic transcription in regulation of cellular metabolism and fate. Several stable intronic sequence RNAs (sisRNAs) were recently implicated in regulation of parental genes. To investigate transcription from introns of the RPE65 gene, we analyzed RNA-seq and Nanopore sequencing data from different cell models of human retinal pigment epithelium (RPE) and native bovine RPE. We discovered putative stable poly-adenylated transcripts with sequences corresponding to intronic regions of the RPE65 gene in the cytoplasm of RPE cells. These stable intronic sequences could be important for RPE65 transcription, splicing or translation. We also analyzed alternative splicing events in RPE65. Frequent exon skipping events involving exons 2, 3, and 7 were detected. The rate of these events was much higher in human RPE cell cultures compared with native RPE , consistent with lack of translation of RPE65 mRNA in cell cultures.https://www.frontiersin.org/article/10.3389/fgene.2019.00634/fullstable intronic sequence RNAlong non-coding RNARNA-seqvisual cycleretinal dystrophy |
| spellingShingle | Olga Postnikova Eugenia Poliakov Nady Golestaneh Igor B. Rogozin T. Michael Redmond Stable Intronic Sequences and Exon Skipping Events in the Human RPE65 Gene: Analysis of Expression in Retinal Pigment Epithelium Cells and Cell Culture Models Frontiers in Genetics stable intronic sequence RNA long non-coding RNA RNA-seq visual cycle retinal dystrophy |
| title | Stable Intronic Sequences and Exon Skipping Events in the Human RPE65 Gene: Analysis of Expression in Retinal Pigment Epithelium Cells and Cell Culture Models |
| title_full | Stable Intronic Sequences and Exon Skipping Events in the Human RPE65 Gene: Analysis of Expression in Retinal Pigment Epithelium Cells and Cell Culture Models |
| title_fullStr | Stable Intronic Sequences and Exon Skipping Events in the Human RPE65 Gene: Analysis of Expression in Retinal Pigment Epithelium Cells and Cell Culture Models |
| title_full_unstemmed | Stable Intronic Sequences and Exon Skipping Events in the Human RPE65 Gene: Analysis of Expression in Retinal Pigment Epithelium Cells and Cell Culture Models |
| title_short | Stable Intronic Sequences and Exon Skipping Events in the Human RPE65 Gene: Analysis of Expression in Retinal Pigment Epithelium Cells and Cell Culture Models |
| title_sort | stable intronic sequences and exon skipping events in the human rpe65 gene analysis of expression in retinal pigment epithelium cells and cell culture models |
| topic | stable intronic sequence RNA long non-coding RNA RNA-seq visual cycle retinal dystrophy |
| url | https://www.frontiersin.org/article/10.3389/fgene.2019.00634/full |
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