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With that in mind, we analyzed the temporal and spatial expression patterns of mouse snRNAs using Northern blotting (Figure S1).
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Putative target(s): the predicted modified nucleotides within rRNAs or snRNAs using the Snoscan package.
To search for small nuclear RNAs (snRNAs), a local PatScan search was employed with consensus sequences of known snRNAs used as a guide (Guthrie and Patterson 1988).
The average expression levels of miRNAs in tissues and sera were normalized with U6 small nuclear RNA (snRNA) and U48 snRNA using the 2-ΔΔCt method [ 23].
Standard curve was prepared for U6 snRNA using a twofold dilution.
For mouse snRNAs: testes, n = 2; and cerebrum, n = 2.
To determine the relative expression of each snRNA isoform, we extracted unique sequencing reads mapped to variable regions based on the sequence alignments of fly and mouse snRNAs.
To determine whether the developmental expression pattern of Drosophila snRNA isoforms is conserved in vertebrates, we analyzed the expression profiles of mouse snRNAs.
The levels of U1 snRNA, used for normalization, were determined using the specific forward primer CGACTGCATAATTTGTGGTAGTGG.
Sequences within dashed rectangles indicate the 5′-end variations of U1 snRNA used in biochemical experiments.
Available mouse snRNA isoforms were aligned in a manner similar to their fly counterparts.
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