Haemoglobin H (Hb H) disease presented as moderate to severe anaemia and commonly occurs in the form of deletional Hb H. An eleven years old, Chinese girl and her mother’s (a Papua New Guinea ethnicity) samples were referred to Institute for Medical Research for further alpha thalassaemia molecular analysis. She presented at two years old with severe hypochromic microcytic anemia (haemoglobin, MCV, MCH, RBC of 3.8g/dL, 65fl, 16.8 pg and 2.28 x 106/μL respectively). Her Hb analysis findings revealed low Hb A2 of 1.6% and Hb F value of 0.3% with presence of fast band in the H region. Presumptive diagnosis of Hb H disease was made based on haemoglobin analysis. At the age of 8 years old, her transfusion requirement increased with evidence of extramedullary haematopoiesis and large splenomegaly; thus, TDT regiment was initiated. She was currently 11 years old, pre- transfusion Hb level was 9-10 g/dl and growing well with spleen shrunk to 1-2cm. No history of recurrent infection to explain her transfusion requirement. Common alpha-globin gene deletions and point mutations were ruled out using the Multiplex Gap and ARMS PCR methods. Further investigation was done using Multiplex Ligation-dependent Probe Amplification (MLPA) method. Heterozygous (--SEA) deletion was detected using Multiplex Gap and Amplification-Refractory Mutation System (ARMS) PCR methods. MLPA findings of the index patient revealed a compound heterozygous state for (--SEA) and uncharacterized deletion spanning from HBA1 intron 2 until HBQ1 exon 3 region. The same uncharacterized deletion was found in the mother’s DNA. Based on the MLPA findings, the deletion size is estimated about ~29.6Kb, which involves HBA1 and leaving the HBA2 gene intact. This finding gives rise to a single gene deletion in the HBA1. Thus, a combination of any two genes deletion with this uncharacterized deletion may result in deletional Hb H. Based on the method performed, a new spectrum of alpha thalassaemia deletion had been discovered. Further characterization of the deletion breakpoint shall be done to identify the actual size of the deletion for better genotype-phenotype correlation.