miRBase data file format

The miRBase database is available for download and installation via the CLC Genomics Workbench, as described in Quantify miRNA.

MiRBase .dat files can also be imported using Standard Import functionality, and selecting the miRBase dat in the Force import as type menu of the Standard Import dialog.

A *.dat file has the following format:

ID cel-let-7
XX
DE Caenorhabditis elegans let-7 stem-loop
XX
FH Key Location/Qualifiers
FH
FT miRNA 17..38
FT /product="cel-let-7-5p"
FT miRNA 60..81
FT /product="cel-let-7-3p"
XX
SQ Sequence 99 BP; 26 A; 19 C; 24 G; 0 T; 30 other;
uacacugugg auccggugag guaguagguu guauaguuug gaauauuacc accggugaac 60
uaugcaauuu ucuaccuuac cggagacaga acucuucga 99
//
ID cel-lin-4
XX
DE Caenorhabditis elegans lin-4 stem-loop
XX
FH Key Location/Qualifiers
FH
FT miRNA 16..36
FT /product="cel-lin-4-5p"
FT miRNA 55..76
FT /product="cel-lin-4-3p"
XX
SQ Sequence 94 BP; 17 A; 25 C; 26 G; 0 T; 26 other;
augcuuccgg ccuguucccu gagaccucaa gugugagugu acuauugaug cuucacaccu 60
gggcucuccg gguaccagga cgguuugagc agau 94
//

If the above formatting is followed, the dat file can be imported as a miRBase file for annotation purposes. In particular, the following needs to be in place:



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