fRNAdb

RNA Type: Multiple classes

Overview: The Functional RNA Database (fRNAdb) is a collection of non-coding RNAs obtained from public resources, including different transcriptome projects. It also provides an UCSC Genome Browser mirror of non-coding elements data.

Search Methods:

• Similarity: search sequences using the BLAST program.
• Keyword: search by ncRNA type (e.g. miRNA, snoRNA) and other keywords such as disease, organism and tissue (e.g. "miRNA oncogene human").
• Tabular: search by catalog item (e.g. Length, Data source, Sequence Ontology, Taxonomy, MicroArray, OMIM, Disease, Anatomy, Biological Process, Molecular Function, Cellular Component or RNA Name).

Source: H-invDB, FANTOM3, miRBase, NONCODE, Rfam, RNAdb and snoRNA-LBME-db, NCBI GEO and Sequence Ontology.

Information Source: Experimental, In silico annotation.

Information Content: Annotation, Biological Process, Cellular Component, Disease, Expression, Molecular Function, RNA Name, Sequence, Taxonomy, Tissue.

Reference: Kin et al., 2007; Mituyama et al., 2009

PubmedID: 17099231, 18948287.

Year: 2009;2007

Multiple search: No

Download: BED, GTF, PSL, FASTA, Other.

Genomic Overview: No

Organism: Homo sapiens (Human), Rattus norvegicus (Norway Rat), Canis familiaris (Dog), Mus musculus (House Mouse), Danio rerio (Zebrafish), Takifugu rubripes (Fugu), Gallus gallus (Chicken), Ciona intestinalis, Drosophila melanogaster (Common Fruit Fly), Caenorhabditis elegans, Arabidopsis Thaliana (Thale Cress), Macaca mulatta (Rhesus Monkey), Bos Taurus (Cattle), Ovis aries (Sheep), Sus scrofa (Wild Boar) and 37059 others.

Url: http://www.ncrna.org/frnadb