Question

Which of the following is untrue about SGP-1?

(a) The program translates all potential exons in each sequence and does pair wise alignment for the translated protein sequences using a dynamic programming approach

(b) The near-perfect matches at the protein level define coding regions

(c) It is a similarity-based web program that aligns two genomic DNA sequences from distinctly related organisms

(d) It stands for Syntenic Gene Prediction

I had been asked this question in an interview.

Enquiry is from Gene Prediction in Eukaryotes topic in chapter Gene and Promoter Prediction of Bioinformatics

Answer 1

Right option is (c) It is a similarity-based web program that aligns two genomic DNA sequences from distinctly related organisms

Explanation: It aligns two genomic DNA sequences from closely related organisms. Similar to EST2Genome, there is no training needed. The limitation is the need for two homologous sequences having similar genes with similar exon structures; if this condition is not met, a gene escapes detection from one sequence when there is no counterpart in another sequence.