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Previous work in our lab using tiling arrays has indicated the existence of several thousand small transcripts of unknown function (TUFs), many of which were expressed in a developmentally-specific manner (He et al., 2007; Wang et al., 2011).
We also asked whether the occurrence of DHSs was correlated with small transcripts of unknown function (TUFs) identified by the whole-genome tiling microarray [ 15].
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Malat1 has also been previously shown to be processed into a smaller transcript of 61 bases in length [ 38].
The larger transcript is approximately 13.7 kb and is expressed predominantly in adult and fetal brain, whereas the smaller transcript of approximately 10.3 kb is more widely expressed.
A unique feature of the TaHKT2 1 7AL-1 gene was an additional smaller transcript of approximately 600 bp in length identified only in root and sheath tissues under both NaCl treated and non-treated conditions, indicating that alternative splicing was evident for this gene in these tissues.
Moreover, Trinity-derived transcripts are not scaffolded across sequencing gaps, which may also lead to generation of a large number of small transcripts.
Therefore, deletion of TIF4631 specifically compromises the ribosome association of small transcripts with long poly(A) tails that associate with Pab1.
This is probably due to the loss of small transcripts during the library normalisation process.
Sima et al. generated siRNA for HPV16 E7 in the pSIRE-DNR plasmid for the generation of small transcripts [ 68].
The nature of the smaller band is not known as small alternate transcripts of DAAM1 are not reported.
Examination of small transcript (20−200 nt) RNA-seq data (ENCODE/Cold Spring Harbor) did not indicate any small intragenic ncRNA originating in this internal promoter-like chromatin.
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