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Questions About Scaffold Length And De Novo Annotation

Hi All,

Could anyone tell me more details about how assembled contig/scaffolds length influence de novo gene prediction? I know that short scaffolds length will for sure limit gene prediction. But i want know more details. Thanks a lot.

Cheers

Elzed

genome annotation
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updated by Yannick Wurm Yannick Wurm • written by Lhl Lhl

1 answer

If a gene is split between two scaffolds (ie. some exons on one; other exons on the other), the gene prediction software won't understand that they're the same gene --> and will thus give you 2 different gene models.

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written by Yannick Wurm Yannick Wurm

Thanks. this makes sense to me.

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written by Lhl Lhl

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