ORF: Open reading frame finding
SIM4: Genomic DNA and cDNA alignment to find exon sequene
UCSC Genome Browser: Genome browser for different organisms, including human, mouse, rat, chick, fly, zebrafish and more
VISTA Genome Browser: Whole-genome alignments
LocusLink Report: Catalogue of known genes
Ensembl: Genome browser, annotation of novel genes based on similarity to known gene, and EST
EPD: Promoter prediction, Eukaryotic Promoter Database at EMBL, Heidelberg
Promoter Prediction: Neural Network Promoter Prediction
NCBI BLAST: Sequence comparison
BLAST 2 Sequence: Alignment of two given sequences
CHORI: BAC Clone ordering, information of RP-BAC vector information
Tools for Molecular Biology
NEBcutter: Restriction digestion analysis
Primo Pro: PCR primer design, including standard PCR, degenerate primer, multiplex PCR, etc.
The Jackson Lab: Collection of information for mouse genetics
TBASE: Transgenic/targeted mutation database
Mouse Genome Resources: NCBI mouse genome resources
Gene expression: Gene expression during development in the mouse. This is part of Mouse Genome Informatics.
Embryo Images: Scanning EM images of mouse/human embryos. This is an excellent site to learn mouse development.
EMAP: Mouse 3D atlas
Mouse Brain Library: Mouse brain (adult and E12.5) atlas