List of databases

Xenopus

• http://www.xenbase.org/entry/
• http://genomics.nimr.mrc.ac.uk/cgi-bin/search.exe - Xenopus Image Annotator (a.k.a. GenMARK)
• http://xenopus.nibb.ac.jp/ (NIBB XDB)

Genome in general (including ENCODE)

• http://www.ensembl.org
• http://genome.ucsc.edu

Annotation

• http://www.genecards.org
• http://www.uniprot.org

Protein domains

• InterPro (https://www.ebi.ac.uk/interpro/interproscan.html (to scan your own protein sequence)
• Pfam
• SMART
• Prosite

Motif

• Jasfer
• TRANSFAC

Orthology

• http://www.ensembl.org/biomart/martview/ - EnsEMBL Biomart
• TreeFam
• EggNog
• InParanoid
• OrthoMCL

Other model organism

• http://www.wormbase.org
• http://www.flybase.org
• http://zfin.org

Gene expression

• http:/biogps.org
• http://geisha.arizona.edu/geisha/ (in situ gene expression data in the chicken)

Sequencing data

• EBI ENA
• NCBI SRA
• NCBI GEO

Proteomics data

• ProteomExchange
• PeptideAtlas

Process/Pathway/Network

• Gene Ontology
• KEGG
• Reactome
• http://string.embl.de
• http://functionalnet.org