annotate gene feature

Question

[arunprasanna83]

Hi,

I have a multi-fasta file with >15k DNA sequences. I wish to mark, UTR's, start, stop features. I tried expasy translate tool and it gives translated sequence with different possible ORFs. My objective is to find, how many sequences are full length. Kindly suggest.

Thanks.

[jean.elbers]

Is this for genome annotation? If so, there are many resources for structural annotation of a genome on biostars to search for.

Answer 1

[arunprasanna83]

It is for multiple purpose. This is basically a isoseq data. So need to confirm how many of them are full length transcripts.

[jean.elbers]

Perhaps you could try

Tool: pinfish: tools to annotate genomes using long read transcriptomics data pinfish: tools to annotate genomes using long read transcriptomics data

and maybe also Transcriptome Annotation by Modular Algorithms (for Iso-Seq data) https://github.com/GenomeRIK/tama

This tool from EMBOSS might also be useful http://emboss.sourceforge.net/apps/release/6.3/emboss/apps/getorf.html