We have sequenced miRNA of bubaline/buffalo leukocytes. Some novel miRNAs have been obtained.
One example file has been attached.
We are now blasting each of the novel miRNA sequence against the miRBase which has yielded miRNA sequences from other animal species like human, mice etc (E-value as small as 0.0001). We are then opening:
1. Interaction explorer (http://www.informatics.jax.org/interaction/explorer)
2. Gene Ontology Classifier
3. KEGG
Please advice what should be the pipeline to annotate the novel miRNA in a species like buffalo where Chromosome wise genomic data are not available?
For the species without geneomic sequences available, people tried to map the candidate miRNAs back to close species. Then, extract the neighboring sequences for RNAfold folding. You may refer to this article (BMC Genomics 2007, 8:445 doi:10.1186/1471-2164-8-445).
Good one from Sung. You may as well use this http://mirnamap.mbc.nctu.edu.tw/
PS: I guess this is a repetitive question Mukhopadhyay? Hope you had referred the links sent by us earlier.
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