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Fig. 1 | BMC Biology

Fig. 1

From: Y chromosomal noncoding RNAs regulate autosomal gene expression via piRNAs in mouse testis

Fig. 1

Analysis of M34 (DQ907163) and identification of a novel noncoding RNA. A Localization by FISH of the genomic clone, M34 to mouse Y long arm in multiple copies spanning its entire length. B Mouse genome map view of M34 BLAST hits (NCBI build 38.1), showing Y chromosomal localization further indicating male-specificity of these repeats. C Fluorescent in situ hybridization (FISH) using M34 elicits signals in adult mouse testis. Green fluorescence represents signal from M34, nuclei are counterstained with Propidium iodide (red). Yellow indicates co-localization. D Hybridization of M34 onto RNase-treated testis sections does not show signals, indicating that the signals in panel C are due to the presence of M34-derived RNA E Sequence analysis of the 9.5 kb M34 shows presence of incomplete copies of different repeats like long terminal repeats (LTRs), long interspersed nuclear elements (LINEs), short interspersed nuclear elements (SINEs), endogenous retroviral sequences (ERVK) and simple sequence repeats in both direct and reverse orientations in the clone. ESTs matching to M34 are marked as dotted arrows at the 3′ end. ES cell EST (CA533654) was used as the probe to identify Pirmy. F Y-specific localization of Pirmy cDNA clone (DQ907162) on a mouse metaphase spread by FISH, showing the presence of multiple copies. G Partial homology between Sly and Pirmy (DQ907162), indicating identification of a novel cDNA. Homology region is highlighted in green rectangles. Purple arrow shows the homology to M34. H The consensus splice signal sequences (AG/GT) at all intron- exon junctions of DQ907162 (see also Data Sheet)

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