Zebrafish embryos in their chorions were imaged from 6 angles in a multiview light sheet microscope. The imaging was started 10 hours post fertilization and was performed for about 4 to 5 hours at a frame interval of 5 min. The resulting images were fused using FIJI, followed by nuclei detection in the fused images and map projection. This data set contains map projected time-lapses of 6 utr::mcherry transgenic embryos. Utrophin binds to actin filaments and was used as a somite boundary marker. The pixel size varies spatially in a map as well as across different projection layers in a single time-lapse. The corresponding Map_pixel_size mat file for each time-lapse contains respective pixel sizes.