Seqanswers Leaderboard Ad

Collapse

Announcement

Collapse
No announcement yet.
X
 
  • Filter
  • Time
  • Show
Clear All
new posts

  • DFam database: what on earth is a "cut and paste" repeat?

    Hi All,

    Downloaded some repeat-masking data from DFam (http://www.dfam.org/) and along with LINE, SINE, LTR etc repeats it includes a class called 'Cut and Paste' repeats. I have never heard of these and can't seem to find any reference to them in the literature or description of them on the website. Anyone know if there's some other common name for them, or does anyone know anything at all about them?

    Any help or pointers towards resources would be really appreciated

  • #2
    They must be direct repeats created by transposition of class II transposons: http://users.rcn.com/jkimball.ma.ult...ansposons.html

    Comment


    • #3
      Originally posted by GenoMax View Post
      They must be direct repeats created by transposition of class II transposons: http://users.rcn.com/jkimball.ma.ult...ansposons.html
      Thank you SO much - it seems this was a case of one of those things that is hard to google if you don't know what you're looking for. All the results I got from searching for "cut and paste" just picked it up as a turn of phrase in a ton of irrelevant papers. Now that your link has allowed me to search for type II transposons I found plenty of results.
      For the benefit of anyone else reading the thread, I found this paper very informative if you would like to check it out:

      Muñoz-López, Martín, and José L. García-Pérez. “DNA Transposons: Nature and Applications in Genomics.” Current Genomics 11.2 (2010): 115–128. PMC. Web. 8 Sept. 2015.http://www.ncbi.nlm.nih.gov/pmc/arti.../CG-11-115.pdf

      Comment

      Latest Articles

      Collapse

      • seqadmin
        Current Approaches to Protein Sequencing
        by seqadmin


        Proteins are often described as the workhorses of the cell, and identifying their sequences is key to understanding their role in biological processes and disease. Currently, the most common technique used to determine protein sequences is mass spectrometry. While still a valuable tool, mass spectrometry faces several limitations and requires a highly experienced scientist familiar with the equipment to operate it. Additionally, other proteomic methods, like affinity assays, are constrained...
        04-04-2024, 04:25 PM
      • seqadmin
        Strategies for Sequencing Challenging Samples
        by seqadmin


        Despite advancements in sequencing platforms and related sample preparation technologies, certain sample types continue to present significant challenges that can compromise sequencing results. Pedro Echave, Senior Manager of the Global Business Segment at Revvity, explained that the success of a sequencing experiment ultimately depends on the amount and integrity of the nucleic acid template (RNA or DNA) obtained from a sample. “The better the quality of the nucleic acid isolated...
        03-22-2024, 06:39 AM

      ad_right_rmr

      Collapse

      News

      Collapse

      Topics Statistics Last Post
      Started by seqadmin, 04-11-2024, 12:08 PM
      0 responses
      27 views
      0 likes
      Last Post seqadmin  
      Started by seqadmin, 04-10-2024, 10:19 PM
      0 responses
      30 views
      0 likes
      Last Post seqadmin  
      Started by seqadmin, 04-10-2024, 09:21 AM
      0 responses
      26 views
      0 likes
      Last Post seqadmin  
      Started by seqadmin, 04-04-2024, 09:00 AM
      0 responses
      52 views
      0 likes
      Last Post seqadmin  
      Working...
      X