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Figure 4 | Genome Biology

Figure 4

From: Identification of novel Y chromosome encoded transcripts by testis transcriptome analysis of mice with deletions of the Y chromosome long arm

Figure 4

Identification of the novel MSYq encoded transcripts Asty and Asty(rec). (a) Testis transcripts identified from a BLAST (basic local alignment search tool) with the arrayed X encoded Astx cDNA clone 8832_f_22. BF019211, CF198098 and AK076884 are X encoded transcripts, whereas the rest are Y encoded transcripts. The Y encoded transcripts AK016790 and BY716467 include exons that do not derive from Asty (including two exons matching Ssty1). We refer to these transcripts as Asty(rec) because they derive from novel 'recombinant' loci on MSYq. For all the transcripts the percentage sequence identity is given for those regions that match the microarrayed clone. (b) The structure of the Asty(rec) locus encoding AK016790. The exons included in AK016790 are indicated by filled color coded rectangles and the inter-exonic distances are given in base pairs. The position of other Ssty1 and Asty exons not included in the AK016790 transcript are also indicated. (Note that the Ssty1 exon 3 is truncated in the Asty(rec) locus.) The two exons colored red are those that match the previously described transcript AK015935. (c) Reverse transcriptase polymerase chain reaction of testis cDNA with primers designed to specifically amplify Asty/Asty(rec) or Astx transcripts. It is clear that it is the Asty/Asty(rec) transcripts that are preferentially reduced in the MSYq deficient males. (d) Northern blot of total testis RNA probed with an Asty exon 4 probe and with an actin probe as a loading control. Transcripts ranging in size from about 1 kilobase (kb) to more than 9.5 kb are detected with the Asty exon 4 probe; the approximately 7.5 kb and larger transcripts definitely derive from the Asty/Asty(rec) loci (see text) and (in contrast to AK016790) must include Asty exon 4.

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