Body: <p>I performed several BLAST searches and identified several genes of interest in a Whole Genome Shotgun (wgs) project. I know that gene <em><strong>X</strong></em> is located on scaffold 1234, from nucleotide 1 - 2250, while gene <em><strong>Y</strong></em> is located on scaffold 2571, from nucleotide 3380 - 5790.</p>
  <p>Given this information is it possible to determine if these genes are close to each other in the genome?</p>
  <p>Many thanks for your help,</p>
  <ul>
  <li>Leah</li>
  </ul>
  
Comments.ContentLicense: CC BY-SA 4.0
Comments.CreationDate: 2020-04-03T09:49:55.573Z
Comments.Text: great question.. i guess if you cannot assemble the contigs, chances are you are unlikely to get it from the current dataset.. which organism is this?
Comments.UserDisplayName: StupidWolf
Comments.ContentLicense: CC BY-SA 4.0
Comments.CreationDate: 2020-04-04T18:57:50.630Z
Comments.Text: Thanks @StupidWolf! It is a wgs from an amoebozoan protist.
Comments.UserDisplayName: Leah
Comments.ContentLicense: CC BY-SA 4.0
Comments.CreationDate: 2020-04-04T19:03:41.060Z
Comments.Text: @michael, I would very much appreciate your thoughts on this question!
Comments.UserDisplayName: Leah
Tags: <genome><wgs><scaffold>
Title: Is it possible to determine the genomic context of a gene in a Whole Genome Shotgun project?
ThreadText: # Is it possible to determine the genomic context of a gene in a Whole Genome Shotgun project?
  
  (Asked by: username_0 on 2020-04-03)
  
  I performed several BLAST searches and identified several genes of interest in a Whole Genome Shotgun (wgs) project. I know that gene ***X*** is located on scaffold 1234, from nucleotide 1 - 2250, while gene ***Y*** is located on scaffold 2571, from nucleotide 3380 - 5790.
  
  Given this information is it possible to determine if these genes are close to each other in the genome?
  
  Many thanks for your help,
  
  * username_0
  
  **Tags:** genome, wgs, scaffold
  
  > **Comments:**
  > **username_1**: great question.. i guess if you cannot assemble the contigs, chances are you are unlikely to get it from the current dataset.. which organism is this?  
  > **username_0**: Thanks @username_1! It is a wgs from an amoebozoan protist.  
  > **username_0**: @michael, I would very much appreciate your thoughts on this question!  
  
  ---
  
  ## 0 answers
  
  