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Rm62 is an mRNA-binding protein with ATP-dependent helicase activity that has been implicated in alternative splicing [34], [35], making it a potent potential downstream target of SXL.
This rare class of donor splice signals has been implicated in alternative splicing [ 9, 11, 12].
Almost all of the genes in cluster 78 have been implicated in alternative splicing, e.g. recent studies of KHDRBS1, aka Sam68 [ 31].
A PTB7-like protein was also identified in pumpkin phloem and its orthologs in Arabidopsis have been implicated in alternative splicing [ 2, 57].
In contrast, SERBP1 (a.k.a. PAI-RBP1) has been suggested to play a role in mRNA stability (86), while EWS and FUS have both been implicated in alternative splicing regulation (87– 93).
Using SHEAR's heterogeneity estimation scheme described earlier, for this SV we would have A = 3,094 + 2,306 = 5,400 and B = 702 + 412 = 1,114 for an estimated heterogeneity of: Deletions in this region have been implicated in alternative splicing of the AR gene, which can result in resistance to androgen depletion therapy (ADT) in CRPCa patients.
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Among these were mbl and x16, both of which are implicated in alternative splicing (Vorbrüggen et al. 2000; Wang et al. 2012).
The importance of not restricting analysis of cancer-linked aberrant DNA methylation to standard promoter regions is also apparent from recent studies providing evidence that DNA hypermethylation is implicated in alternative promoter usage; regulating splicing of RNA; and, in certain intragenic regions, in upregulating expression [ 2, 66].
Furthermore, preservation of BNIP3 function was shown to decrease apoptotic activity, and may thus be involved in enhanced cell survival through autophagic rescue, or could be implicated in alternative cell death pathways, such as autophagic cell death or necrosis, which we were unable to measure in our experimental approach.
Interestingly, they have been implicated in regulating alternative splicing in various tissues including splicing of troponin T in the heart 35.
Retention of intron 2 or 3 has been implicated in the ELF3 alternative splicing [ 34].
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