Splicing analysis of STAT3 tandem donor suggests non-canonical
binding registers for U1 and U6 snRNAs

J 2024

Splicing analysis of STAT3 tandem donor suggests non-canonical binding registers for U1 and U6 snRNAs

KRAMÁREK, Michal, Přemysl SOUČEK, Kamila RÉBLOVÁ, Lucie KAJAN GRODECKA, Tomáš FREIBERGER et. al.

Basic information

Original name

Splicing analysis of STAT3 tandem donor suggests non-canonical binding registers for U1 and U6 snRNAs

Authors

KRAMÁREK, Michal (703 Slovakia, belonging to the institution), Přemysl SOUČEK (203 Czech Republic, belonging to the institution), Kamila RÉBLOVÁ (203 Czech Republic, belonging to the institution), Lucie KAJAN GRODECKA (203 Czech Republic) and Tomáš FREIBERGER (203 Czech Republic, belonging to the institution)

Edition

Nucleic acids research, Oxford, Oxford University Press, 2024, 0305-1048

Other information

Language

English

Type of outcome

Článek v odborném periodiku

Field of Study

30102 Immunology

Country of publisher

United Kingdom of Great Britain and Northern Ireland

Confidentiality degree

není předmětem státního či obchodního tajemství

References:

URL

Impact factor

Impact factor: 14.900 in 2022

Organization unit

Faculty of Medicine

DOI

http://dx.doi.org/10.1093/nar/gkae147

UT WoS

001176086700001

Keywords in English

STAT3; snRNA

Abstract

V originále

Tandem donor splice sites (5 ' ss) are unique regions with at least two GU dinucleotides serving as splicing cleavage sites. The Delta 3 tandem 5 ' ss are a specific subclass of 5 ' ss separated by 3 nucleotides which can affect protein function by inserting/deleting a single amino acid. One 5 ' ss is typically preferred, yet factors governing particular 5 ' ss choice are not fully understood. A highly conserved exon 21 of the STAT3 gene was chosen as a model to study Delta 3 tandem 5 ' ss splicing mechanisms. Based on multiple lines of experimental evidence, endogenous U1 snRNA most likely binds only to the upstream 5 ' ss. However, the downstream 5 ' ss is used preferentially, and the splice site choice is not dependent on the exact U1 snRNA binding position. Downstream 5 ' ss usage was sensitive to exact nucleotide composition and dependent on the presence of downstream regulatory region. The downstream 5 ' ss usage could be best explained by two novel interactions with endogenous U6 snRNA. U6 snRNA enables the downstream 5 ' ss usage in STAT3 exon 21 by two mechanisms: (i) binding in a novel non-canonical register and (ii) establishing extended Watson-Crick base pairing with the downstream regulatory region. This study suggests that U6:5 ' ss interaction is more flexible than previously thought.

Links

LM2018132, research and development project

Name: Národní centrum lékařské genomiky (Acronym: NCLG)

Investor: Ministry of Education, Youth and Sports of the CR, National Center for Medical Genomics

MUNI/A/1244/2021, interní kód MU

Name: Vrozená imunita a její abnormality v rozvoji imunopatologických stavů

Investor: Masaryk University

Citovat

KRAMÁREK, Michal, Přemysl SOUČEK, Kamila RÉBLOVÁ, Lucie KAJAN GRODECKA and Tomáš FREIBERGER. Splicing analysis of STAT3 tandem donor suggests non-canonical binding registers for U1 and U6 snRNAs. Nucleic acids research. Oxford: Oxford University Press, 2024, vol. 52, No 10, p. 5959-5974. ISSN 0305-1048. Available from: https://dx.doi.org/10.1093/nar/gkae147.

@article{2407804,
   author = {Kramárek, Michal and Souček, Přemysl and Réblová, Kamila and Kajan Grodecka, Lucie and Freiberger, Tomáš},
   article_location = {Oxford},
   article_number = {10},
   doi = {http://dx.doi.org/10.1093/nar/gkae147},
   keywords = {STAT3; snRNA},
   language = {eng},
   issn = {0305-1048},
   journal = {Nucleic acids research},
   title = {Splicing analysis of STAT3 tandem donor suggests non-canonical binding registers for U1 and U6 snRNAs},
   url = {https://academic.oup.com/nar/advance-article/doi/10.1093/nar/gkae147/7617147?login=true},
   volume = {52},
   year = {2024}
}

TY  - JOUR
ID  - 2407804
AU  - Kramárek, Michal - Souček, Přemysl - Réblová, Kamila - Kajan Grodecka, Lucie - Freiberger, Tomáš
PY  - 2024
TI  - Splicing analysis of STAT3 tandem donor suggests non-canonical binding registers for U1 and U6 snRNAs
JF  - Nucleic acids research
VL  - 52
IS  - 10
SP  - 5959-5974
EP  - 5959-5974
PB  - Oxford University Press
SN  - 03051048
KW  - STAT3
KW  - snRNA
UR  - https://academic.oup.com/nar/advance-article/doi/10.1093/nar/gkae147/7617147?login=true
N2  - Tandem donor splice sites (5 ' ss) are unique regions with at least two GU dinucleotides serving as splicing cleavage sites. The Delta 3 tandem 5 ' ss are a specific subclass of 5 ' ss separated by 3 nucleotides which can affect protein function by inserting/deleting a single amino acid. One 5 ' ss is typically preferred, yet factors governing particular 5 ' ss choice are not fully understood. A highly conserved exon 21 of the STAT3 gene was chosen as a model to study Delta 3 tandem 5 ' ss splicing mechanisms. Based on multiple lines of experimental evidence, endogenous U1 snRNA most likely binds only to the upstream 5 ' ss. However, the downstream 5 ' ss is used preferentially, and the splice site choice is not dependent on the exact U1 snRNA binding position. Downstream 5 ' ss usage was sensitive to exact nucleotide composition and dependent on the presence of downstream regulatory region. The downstream 5 ' ss usage could be best explained by two novel interactions with endogenous U6 snRNA. U6 snRNA enables the downstream 5 ' ss usage in STAT3 exon 21 by two mechanisms: (i) binding in a novel non-canonical register and (ii) establishing extended Watson-Crick base pairing with the downstream regulatory region. This study suggests that U6:5 ' ss interaction is more flexible than previously thought.
ER  -

KRAMÁREK, Michal, Přemysl SOUČEK, Kamila RÉBLOVÁ, Lucie KAJAN GRODECKA and Tomáš FREIBERGER. Splicing analysis of STAT3 tandem donor suggests non-canonical binding registers for U1 and U6 snRNAs. \textit{Nucleic acids research}. Oxford: Oxford University Press, 2024, vol.~52, No~10, p.~5959-5974. ISSN~0305-1048. Available from: https://dx.doi.org/10.1093/nar/gkae147.

Detailed Information on Publication Record