| miRNA (miRs) database | ftp://miRBase.org/pub/miRBase/CURRENT/ | 22.0 |
| Pre-miRNA (mirs/MIRs) database | ftp://miRBase.org/pub/miRBase/CURRENT/ | 22.0 |
| RFam | Collection of many common non-coding RNA families other than miRNA http://rfam.janelia.org | 12.0 |
| Repbase | Prototypic sequences representing repetitive DNA from different eukaryotic species http://www.girinst.org/repbase | 22.07 |
| Genome database | ftp://ftp.ensembl.org/pub/release-101/fasta/homo_sapiens/dna/ | |
| mRNA database | ftp://ftp.ensembl.org/pub/release-101/fasta/homo_sapiens/dna/ | |
| KEGG pathway database | http://www.genome.jp/kegg | 2016.05 |
| Gene Ontology database | http://geneontology.org/ | 2016.04 |