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Exact(5)
Or, they may represent splice variants.
These "secondary transcripts" may represent splice isoforms, putative paralogs, or partially assembled transcripts, although their characterization is difficult in the absence of a reference genome.
As observed in Arabidopsis and other species, the multiple contig copies that comprise many of the loci may represent splice variants, not fully sequenced transcripts or different alleles.
ESTs within a contig derive from nearly identical transcripts, whereas contigs within a cluster may represent splice isoforms of a gene or transcripts from multi-gene families with extremely high sequence identity [ 14].
Several explanations have been given for this variation: (1) probe sets may represent splice variants or may cross-hybridize to different members that belong to a highly similar gene family or transcripts with different poly-A sites; (2) one probe set is more 5' located than the other and (3) one probe set is better designed than the other [ 41].
Similar(55)
They may represent splicing variants or alleles of the same gene [ 121].
Changes in exon/intron numbers may represent splicing variants has been used to classify genes in many gene families, such as polygalacturonases (PGs) family, MYB family, and bHLH family [ 15– 17].
While it is natural to expect that rapidly evolving genes also have rapidly evolving alternative splicing, a significant fraction of observed alternative variants may represent splicing errors.
These putative ncRNAs may thus represent spliced, single-exon, primary snoRNA or microRNA transcripts [ 6].
A very high coverage of introns with ESTs, especially when using next generation transcriptome sequencing, can reveal even very rare events that may partly represent splicing noise of the cell.
The primers for this gene were designed around an intron and the size of the second band is similar to the 664 bp that would be expected if the intron were not spliced, suggesting that this band may represent a splice variant.
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