This project aims to identify genomic regions that have contributed to ecological differentiation among recently diverged Northern Pacific species pairs from genus Sebastes. We expect depth segregated speciation to result in selective sweeps that generate islands of genomic diversification. We have sequenced exomes from S. chlorostictus-S. rosenblatti and S. crocotulus-S. miniatus. The former pair is more recently diverged (0.21 Ma) while the latter pair diverged longer ago (2.3 Ma). Species pairs that are more recently diverged should have more numerous but distinct genomic islands due to the recency of their divergence and contemporary gene flow. Species pairs that are more divergent should have fewer and less recognizable genomic islands across their genomes. The average exome wide Fst (a measure of population differentiation) for S. chlorostictus-S. rosenblatti was 0.02 while the average exome-wide Fst for S. crocotulus-S. miniatus. was 0.07. Although exome wide average Fst values are relatively low for both species pairs, they both shared chromosomal regions with elevated Fst values. Finally, nonsynonymous (dn) and synonymous (ds) substitutions were estimated between species pairs to identify loci under positive (dn/ds > 1), neutral (dn/ds = 1) or purifying (dn/ds < 1) selection. Out of 24,093 genes, 1329 genes showed positive selection for S. chlorostictus-S. rosenblatti and 1224 genes showed positive selection for S. crocotulus-S. miniatus. These results provide insight into genomic impacts on speciation in the marine environment.