SiLoDb

RNA Type: small RNA

Overview: siRNA Locus Database (SiLoDb) is a repository of small RNAs in plants (Medicago truncatula, Arabidopsis thaliana, Chlamydomonas reinhardtii, Oryza sativa and Solanum lycopersicum).It provides a detailed annotation for these RNAs, regarding their loci, size, class and strand-oriented distribution.

Search Methods:

• Keyword: search by sequence, minimum and maximum number of full length perfect matches to the genome; or by unique matches, strand bias, percentage mers (e.g. 20-21 - in SRNA loci search).
• TAG: search by length, output (in sRNA sequence search); or by features (e.g. mature miRNA – in SRNA loci search).
• Tabular: search by sample accession id.
• Genomic Location: search by chromosome location.

Source: GEO, miRBase, Medicago Sequencing Project, TAIR, JGI, MSU website (Rice Genome Annotation Project), SOL genomics network.

Information Source: Experimental.

Information Content: Comparative analysis, Expression, Loci, Sample, Sequence, Size classes, Strand bias.

Reference: Unpublished

PubmedID: 17169981.

Year: Unpublish

Multiple search: Yes

Download: No

Genomic Overview: Yes

Organism: Arabidopsis Thaliana (Thale Cress), Medicago truncatula (Barrel Medic), Solanum lycopersicum (Tomato ), Ozyra sativa, Chamydomonas reinhardtii.

Url: http://silodb.cmp.uea.ac.uk/