<p>Proteins don't have ORFs, DNA sequences do.  What DNA sequences do you have?  If cDNA (i.e. transcript/mRNA) then an ORF finder will give multiple ORFs and the coordinates on the full-length input DNA which indicate it's length.</p>

CC BY-SA 4.0
2019-10-20T22:32:01.157Z
can you give me example of ORF finder.
Ahmed M.Osman
CC BY-SA 4.0
2019-10-23T02:51:28.883Z
EMBOSS has ORF finder, but it will find all ORFs, which may not be what you want (e.g. you may have to post-process to pick the longest of the overlapping ORFs).  Usually folks use a gene-finder instead, which includes an ORF finder but also other features, such as promoter/transcriptional start site and may include special handling for intron/exon boundaries (i.e. for eukaryotes).  I like Prodigal for microbiome data but there are several choices including genemark, fgenesh, glimmer/glimmerhmm, genscan although particular genefinders are usually suited for either prokaryotes or eukaryotes.
Edward Kirton
CC BY-SA 4.0
2019-09-11T02:04:28.250Z
2019-09-11T02:04:28.250Z
Edward Kirton
<p>I have a protein Seq. and I want to know</p>

<ul>
<li>how to Know the longest ORF in this Protein?</li>
</ul>

<p>and if there is any tutorial for this process ?? </p>

CC BY-SA 4.0
2019-09-09T17:14:34.547Z
Hi, you need to supply example data. The question has been asked and answered several times already and referring to past posts would help get you started.
M__
CC BY-SA 4.0
2019-09-09T17:21:06.807Z
If you have a protein sequence, you already have the ORF. I assume you mean you have a DNA sequence, not a protein sequence, right? In what species? Is there splicing? Is this a bacterium or a eukaryote? Please [edit] your question and give us some context. Add the actual sequence and the organism.
terdon
<proteins><orf>
how to Know the longest ORF in Protein?
# how to Know the longest ORF in Protein?

(Asked by: username_0 on 2019-09-09)

I have a protein Seq. and I want to know

* how to Know the longest ORF in this Protein?

and if there is any tutorial for this process ??

**Tags:** proteins, orf
> **Comments:**
> **username_1**: Hi, you need to supply example data. The question has been asked and answered several times already and referring to past posts would help get you started.  
> **username_2**: If you have a protein sequence, you already have the ORF. I assume you mean you have a DNA sequence, not a protein sequence, right? In what species? Is there splicing? Is this a bacterium or a eukaryote? Please [edit] your question and give us some context. Add the actual sequence and the organism.  

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## 1 answers

### Answer by username_3 on 2019-09-11. Score: 2 | Accepted answer

Proteins don't have ORFs, DNA sequences do. What DNA sequences do you have? If cDNA (i.e. transcript/mRNA) then an ORF finder will give multiple ORFs and the coordinates on the full-length input DNA which indicate it's length.

> **Comments:**
> **username_0**: can you give me example of ORF finder.  
> **username_3**: EMBOSS has ORF finder, but it will find all ORFs, which may not be what you want (e.g. you may have to post-process to pick the longest of the overlapping ORFs).  Usually folks use a gene-finder instead, which includes an ORF finder but also other features, such as promoter/transcriptional start site and may include special handling for intron/exon boundaries (i.e. for eukaryotes).  I like Prodigal for microbiome data but there are several choices including genemark, fgenesh, glimmer/glimmerhmm, genscan although particular genefinders are usually suited for either prokaryotes or eukaryotes.  

---

