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Research Article
Alternative Splicing of RNF180 Genes in Different Species Based on Comparative Genomics Analysis
Li-ping Sun
First Hospital of China Medical University
Corresponding Author
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Alternative splicing (AS) influences gene regulation, cell differentiation, and tissue development and is involved in many human diseases. The ring finger protein 180 (RNF180), a tumor suppressor gene, has four transcripts and seven predicted transcripts. However, the role of alternatively spliced products in the function and regulation of the RNF180 gene remain unknown. We used a comparative genomics approach to investigate RNF180 AS in different species. Conserved coding sequences, alternative splicing expression profiles and intron sequences were compared, and evolutionary selection pressure analyses of exons were performed. We found that the RNF180 zinc finger structure, which was related to major ubiquitination functions, was highly conserved and exon 5 was absent in many species. Comparisons with the corresponding intron revealed that exon 5 possessed high similarity. In exon pressure selection analysis, exon 6 was in the purifying selection, which corresponded to the zinc finger domain, while exons 7 and 8 faced positive selection evolution. Finally, there were multiple alternatively spliced forms of RNF180 in four transcripts. These results suggested that complex alternative splicing of the RNF180 gene occurred in multiple species. Partial splicing variants had evolutionarily conserved regions and functional region deletions.
Keywords
RNF180, alternative splicing, comparative genomics analysis, evolution
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This preprint is under consideration at Scientific Reports. A preprint is a preliminary version of a manuscript that has not completed peer review at a journal. Research Square does not conduct peer review prior to posting preprints. The posting of a preprint on this server should not be interpreted as an endorsement of its validity or suitability for dissemination as established information or for guiding clinical practice.
Learn more about In Review
Research Article
Alternative Splicing of RNF180 Genes in Different Species Based on Comparative Genomics Analysis
Li-ping Sun
First Hospital of China Medical University
Corresponding Author
Badges
Prescreen
This manuscript passed our Prescreen assessment
Complete author information
Appropriate declaration statements
Potential risks to human health
Prescreen
Peer Review Timeline
CURRENT STATUS: Under Review
Version 1
Posted 21 Dec, 2020
No community comments so far
Reviewer #1 agreed
On 22 Jan, 2021
Reviewer #2 agreed
On 18 Jan, 2021
Reviewer #6 agreed
On 18 Jan, 2021
Reviewer #4 agreed
On 18 Jan, 2021
Reviewer #3 agreed
On 18 Jan, 2021
Reviewer #5 agreed
On 18 Jan, 2021
Reviewers invited
Invitations sent on 18 Jan, 2021
Editor assigned
On 12 Jan, 2021
Editor invited
On 17 Dec, 2020
Submission checks complete
On 17 Dec, 2020
First submitted
On 16 Dec, 2020
Metrics
Comments: 0
PDF Downloads: ...
HTML Views: ...
License:
This work is licensed under a CC BY 4.0 License. Read Full License
Alternative splicing (AS) influences gene regulation, cell differentiation, and tissue development and is involved in many human diseases. The ring finger protein 180 (RNF180), a tumor suppressor gene, has four transcripts and seven predicted transcripts. However, the role of alternatively spliced products in the function and regulation of the RNF180 gene remain unknown. We used a comparative genomics approach to investigate RNF180 AS in different species. Conserved coding sequences, alternative splicing expression profiles and intron sequences were compared, and evolutionary selection pressure analyses of exons were performed. We found that the RNF180 zinc finger structure, which was related to major ubiquitination functions, was highly conserved and exon 5 was absent in many species. Comparisons with the corresponding intron revealed that exon 5 possessed high similarity. In exon pressure selection analysis, exon 6 was in the purifying selection, which corresponded to the zinc finger domain, while exons 7 and 8 faced positive selection evolution. Finally, there were multiple alternatively spliced forms of RNF180 in four transcripts. These results suggested that complex alternative splicing of the RNF180 gene occurred in multiple species. Partial splicing variants had evolutionarily conserved regions and functional region deletions.
Figure 1
Figure 2
Figure 3
Figure 4
Figure 5