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Missing genes include the low molecular weight PTP (LMW-PTP) and the eyes absent (EYA) phosphatase.
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To insure that, we first provide a webpage on COMBREX's database website with all the missed genes, including the ones that can be related to COMBREX genes.
One of the goals of this study was to achieve a complete picture of the transcriptome: utilizing all the available data, build accurate transcripts without either missing genes, or including spurious sequences.
The missing gene sets include putative split or pseudogenes and truncated genes.
Reasons for missing genes might also include using a less sensitive gene finder or gene annotation pipeline.
The missing genes in A. kona mtDNA include four from the S10 operon (rps10, rps19, rpl2, and rpl16), all of which are identified in A. kona nuclear contigs.
In comparison, this phenotypic avirulent SAVP1 strain was missing multiple genes including all the animal type III secretory system (T3SS) complex of genes demonstrated to be essential for virulence in mice and hamster models.
In addition to missing genes, we found many other inconsistencies, including genes of varying lengths and with clearly incompatible names, but resolving those inconsistencies is much more difficult, often involving manual curation.
So where are the missing genes?
Not all the missing genes are interesting.
This can explain some missing genes.
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