Body: <p>I would like to find a few genes that are similar in length to a gene of interest, and by that I mean the total length of a canonical transcript including introns. This is proving to be surprisingly hard using web based lookups.</p>
  <p>The gene of interest is 14.5Kb long and I wanted a table of genes and their canonical lengths to compare and contrast to in order to pick a few to have a look at in some vcfs I have.</p>
  <p>I have a low bioinformatics ability but happy to give things a go!</p>
  <p>All the best</p>
  <p>I have tried:</p>
  <ul>
  <li>first download a file of all gene files from ensembl which looks like this:
  <a href="https://i.sstatic.net/GJrPI.png" rel="nofollow noreferrer"><img src="https://i.sstatic.net/GJrPI.png" alt="enter image description here" /></a></li>
  </ul>
  <p>Then in R:</p>
  <pre><code>x &lt;- read.delim(&quot;all_genes_bed.txt&quot;)
  x<span class="math-container">$length &lt;- (x$</span>Gene.end..bp.-x<span class="math-container">$Gene.start..bp.)
  x &lt;- subset(x, x$</span>length &gt;14000 &amp; x$length &lt;15000)
  </code></pre>
  <p>Then I just had a look in the RStudio browser.</p>
  <p>That seemed to work!</p>
  
Comments.ContentLicense: CC BY-SA 4.0
Comments.CreationDate: 2020-12-03T12:57:03.467Z
Comments.Text: @ATpoint many thanks for taking the time to answer. Would I get this from ensembl? I think once I have the file I could do that in R. Not sure how to get the whole gene table though
Comments.UserDisplayName: tacrolimus
Comments.ContentLicense: CC BY-SA 4.0
Comments.CreationDate: 2020-12-03T15:37:28.377Z
Comments.Text: @ATpoint I think I solved it, let me know if this seems reasonble
Comments.UserDisplayName: tacrolimus
Tags: <gene><ensembl>
Title: Finding a gene of similar length
ThreadText: # Finding a gene of similar length
  
  (Asked by: username_0 on 2020-12-03)
  
  I would like to find a few genes that are similar in length to a gene of interest, and by that I mean the total length of a canonical transcript including introns. This is proving to be surprisingly hard using web based lookups.
  
  The gene of interest is 14.5Kb long and I wanted a table of genes and their canonical lengths to compare and contrast to in order to pick a few to have a look at in some vcfs I have.
  
  I have a low bioinformatics ability but happy to give things a go!
  
  All the best
  
  I have tried:
  
  * first download a file of all gene files from ensembl which looks like this:
    [![enter image description here](https://i.sstatic.net/GJrPI.png)](https://i.sstatic.net/GJrPI.png)
  
  Then in R:
  
  ```
  x <- read.delim("all_genes_bed.txt")
  x$length <- (x$Gene.end..bp.-x$Gene.start..bp.)
  x <- subset(x, x$length >14000 & x$length <15000)
  
  ```
  
  Then I just had a look in the RStudio browser.
  
  That seemed to work!
  
  **Tags:** gene, ensembl
  
  > **Comments:**
  > **username_0**: @ATpoint many thanks for taking the time to answer. Would I get this from ensembl? I think once I have the file I could do that in R. Not sure how to get the whole gene table though  
  > **username_0**: @ATpoint I think I solved it, let me know if this seems reasonble  
  
  ---
  
  ## 0 answers
  
  