CSRDB

RNA Type: small RNA

Overview: The Cereal small RNAs database (CSRDB) is a repository of maize and rice miRNAs and siRNAs obtained by 454 high-throughput sequencing and corresponding predicted mRNA targets generated by in silico analysis.

Search Methods:

• Similarity: search sequences using the BLAST program. There is a tool to search for conserved target sites and transcripts.
• Keyword: search by transcript/small RNA ID or small RNA sequence.

Source: In house experiments, miRBase, Rfam and Prediction tools (FASTH program, alignment tools – T-COFFEE.

Information Source: Experimental, In silico annotation.

Information Content: Annotation, Cereal, High-throughput sequencing, Next-generation data, Prediction tools, Sequence, Target site.

Reference: Johnson et al., 2006

PubmedID: 17169981.

Year: 2006

Multiple search: No

Download: FASTA, Other.

Genomic Overview: Yes

Organism: Zea mays, Ozyra sativa, Acinetobacter baumannii ACICU, Corynebacterium diphtheriae HC02, Dehalococcoides mccartyi GT, Flavobacterium psychrophilum JIP02/86.

Url: http://sundarlab.ucdavis.edu/smrnas/