Hi Everyone,
I am trying to find stress responsive cis elements in the upstream regions of miRNAs in Brassica napus. miRbase gives me the genomic coordinates of miRNA precursor gene, but I am not able to find those in Brassica database.
I am attaching a link for one such miRNA, the coordinates are given in the Genomic Context.
I would highly appreciate if some one could guide me on how to find the upstream region from the coordinates.
Thanks
http://www.mirbase.org/cgi-bin/mirna_entry.pl?acc=MI0006470
Hi Swati,
The file gives information about the GenAbnk accession numbers and the genomic corrodinates. For example, AC189658 is the accession number which you can use in ENTREZ or any other sequence retrieval programs for getting the clone and subsequently see the region in the given coordiates (41467-41599 [-])...Use information of + or - strands also ....To get the 1000 kb or more upstream sequence use 1000 bp upstream coordiates...You can get the information required...try it
bye
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