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To determine which isoforms of Dync1i2 were expressed in these tissues, the RT-PCR products were subcloned and sequenced; subsequent analysis, revealed a total of 11 different isoforms each having either exon 1a or exon 1b at the start of the transcript (Table 1, Figure 4).
(3) If there is no matched tissue distribution, repeat the search in the 2 kb sequence downstream to the start of the transcript.
Sequenced PCR products, cloned after amplification of the start of the transcript, included 0, 206 or 370 nucleotides upstream of the predicted translation initiation codon.
Boundaries for 573 CDSs were extended or shortened based on SL mapping of the start of the transcript by using the 5′-most in-frame start codon after the major SL site unless ribosome profiling or mRNA levels indicated otherwise.
However, the Streblomastix intron is located very close to the start of the transcript, so we cannot exclude the possibility that this intron sequence is incomplete and a canonical boundary lies upstream.
Both Gambierdiscus transcriptomes examined here also contained numerous other putative polyketide domains (Fig. 1, Additional file 1: Tables S8 S9), including a transcript resembling a type II KR domain (Fig. 3b, a SL at the start of the transcript confirms its dinoflagellate origin).
Similar(53)
Given that the elongation rate is not homogeneous along a gene, and that promoter-proximal pausing of RNA polymerase II is common, we reasoned that the elongation rate of the polymerase may be generally lower at the start of the transcripts, allowing better recognition of cassette exons that are close to the TSS.
If the clone is full length, the 5' end will start at the beginning of the transcript, otherwise it can start anywhere within the original mRNA sequence.
5′-UTRs are defined as the sequence located between a transcription start point and the beginning of the start codon of the transcript.
For instance, some deletions (such as the one present in mlh-1 gk516 mlh-1 gk516e premover and sthet codon of the transcripromoterstudents were ande to predict that thistartld result in no mRNA or protein being made.
There were 22 genes for which annotation of alternative promoters was based solely on nested transcripts, where the start of the shorter transcripts lay within exons of the longest transcript, e.g. fkh-9.
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