Question: Difference between NCBI mRNA sequences and RNA-seq assembled sequences
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gravatar for Kurban
2.8 years ago by
Kurban170
china/Urumqi/xinjiang academy of animal scinces
Kurban170 wrote:

Hello guys, I have downloaded Tribolium castaneum transcripts in fasta format from NCBI (http://www.ncbi.nlm.nih.gov/genome/?term=Tribolium%20castaneum), what is the difference between these sequences and assembled transcriptome sequences generated from RNA-seq? can both of them stands for protein codding sequences? What is the difference with the transcripts (mRNA) sequences downloaded from NCBI and RNA-seq assembled sequences?

sequencing rna-seq mrna ncbi • 810 views
ADD COMMENTlink modified 2.8 years ago by pld4.8k • written 2.8 years ago by Kurban170
1
gravatar for genomax
2.8 years ago by
genomax62k
United States
genomax62k wrote:

Tribolium assembly was generated by Baylor using Sanger sequencing. The supplementary material indicates that the EST's were separately sequenced.
In principle the transcripts assembled using Sanger sequencing should be similar to ones generated by RNAseq (provided the assembly programs worked well in both cases). RNAseq data likely presents a deeper sampling of the transcriptome (because of the differences in technology) and may have better representation of transcripts.

ADD COMMENTlink modified 2.8 years ago • written 2.8 years ago by genomax62k
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