Genomic Websites
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For human and mouse, I recommend using GENCODE, which is a by-product of the ENCODE project and keep updating almost every month.
is up-to-date transcriptome annotation for human.
is up-to-data transcriptome annotation for mouse.
Once you downloaded a version from GENCODE (e.g. M25 for mouse), stick on it through out your whole project, this is an important start for making everything consistant.