Design of antisense RNA from alpha thalassemia HBA1&HBA2 gene deletion

1. The Design of Antisense RNA from
Alpha Thalassemia HBA1 & HBA2
Gene Deletion
GROUP MEMBERS
SOHEL RANA (18MSB0003)
MOVVA HARSHAVARDHAN (18MSB0041)
TANVI SINGH(18MSB0044)
RITOBRATA SENGUPTA(18MSB0048)
SANGEETHA M (18MSB0052)

9. Introduction: Designing Anti-Sense RNA
• Antisense RNA is a single stranded RNA that is complementary to a
protein coding messenger RNA (mRNA) with which it hybridizes, and
there by blocks its translation into protein.
• One way of designing Antisense RNA in vitro is by annealing mechanism.
• On the other hand, the basal biochemical mechanisms underlying the
relationship between RNA structure and efficient annealing could allow
one to derive more general rules for the design of in vivo effective
antisense RNA.

10. Methodology
Diagram 1: Diagrammatic representation of flow of work
Literature search in order to find out the genes (HBA1 & HBA2) responsible
for Alpha Thalassemia
Selection of coding sequence of Homo sapiens chromosome 16, GRCh38.p12 Primary
Assembly for HBA1 gene on NCBI
Retrieval of FASTA format for HBA1 gene using NCBI database
Prediction of efficient siRNA candidates for the FASTA sequence using
OligoWalk web server

11. Methodology
• Online Tool Used:
• In order to facilitate Antisense RNA designing , FASTA
sequence of HBA1 gene was retrieved using NCBI
database.
• The National Centre for Biotechnology Information is
part of the United States National Library of Medicine, a
branch of the National Institutes of Health.
• The computational tool used to perform Antisense RNA
designing was OligoWalk.
• OligoWalk is a web server constructed to predict efficient
siRNA candidates for an mRNA sequence on the basis of
the statistical mechanics of the siRNA-target interaction.

12. Results
• Figure 1 – Demonstration of FASTA sequence for HBA1
gene

13. Results
• Figure 2 – OligoWalk output representing efficient siRNA
candidates for HBA1 gene

14. Results
• Figure 3 – The net free energy change(ΔG)

15. Discussion
• Alpha thalassemia is a blood disorder results from
deletions involving the HBA1 & HBA2 genes.
• Both of these genes provide instructions for making a
protein called alpha globin which is a component of
hemoglobin.
• Based on the results obtained using OligoWalk, the below
sequence was found to be the most efficient siRNA and the
selection of sequence relies on the score generated(Highest
score selected).

16. References
• SCZAKIEL, G. (1997). The Design of Antisense RNA. Antisense and
Nucleic Acid Drug Development, 7(4), 439–444.
• Huesken D, Lange J, Mickanin C, Weiler J, Asselbergs F, Warner J,
Meloon B, Engel S, Rosenberg A, Cohen D, Labow M, Reinhardt M,
Natt F, Hall J. (2005). Design of a genome-wide siRNA library using an
artificial neural network. Nat Biotechnol 23:995-1001.

17. THANK YOU!THANK YOU!