sRNAmap

RNA Type: small RNA

Overview: The small noncoding RNA map (sRNAmap) is a database of small RNAs, their transcriptional regulators and target genes in microbial genomes. There is also information related to secondary structures, expression profiles and transcriptional start sites of these ncRNAs.

Search Methods:

• Similarity: query your sequence using the BLAST program.
• Keyword: search by any keyword. Searches are restricted by the TAG options.
• TAG: search by species, sRNA type (e.g. regulators, targets, all), data from (database, computational, literature).
• Tabular: search by literatures records of sRNA gene, computational sRNA, expression profile

Source: EcoCyc, RegulonDB, ASAP, NONCODE, NPInter, GEO, UCSC Archeal Genome Browser, Literature.

Information Source: In silico annotation, Literature.

Information Content: Expression, Microbial genomes, Network, Sequence, Structure, Target gene, Transcription Start Site, Transcriptional Regulators.

Reference: Huang et al., 2009

PubmedID: 19015153.

Year: 2009

Multiple search: Yes

Download: FASTA.

Genomic Overview: Yes

Organism: Escherichia coli, Pectobacterium atrosepticum, Photorhabdus luminescens, Salmonella species, Serratia species, Shigella species, Yersinia species, Clostridium saccharoperbutylacetonicum, Pseudomonas stutzeri DSM 4166, Rickettsia prowazekii Madrid E, Rickettsia typhi TH1527, Streptococcus pyogenes Manfredo, Serratia sp. AS13, Treponema putidum, Streptococcus salivarius CCHSS3.

Url: http://srnamap.mbc.nctu.edu.tw/