Seqanswers Leaderboard Ad

Collapse

Announcement

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

  • rRNA identification tools or information PLEASE!

    Hi everybody,

    I identified in my genome (by blast) 1 contig which is the rRNA genome.

    Now, I am searching for tools able to tell me where is exactly all the different part: i mean the 18S/ITS1/5.8S/ITS2/28S...

    I tried with RNAmmer Prediction Server.
    It give me the 18S and the 28S but not the 5.8S so i guess it is a fake identification...

    Or do you have any information about the structure of the rRNA sequence?
    So i can find by myself the beginning and the end of each part...

    I couldn't found any information !!!!

    Thank you very much

  • #2
    RNAmmer Prediction works fine, and 5.8S was intentionally excluded from the prediction, in the paper the authors wrote,

    "In eukaryotes, 5S, 5.8S and 28S rRNA exist in the large subunit, and 18S rRNA in the small subunit. The 5.8S is not considered in this work."

    Comment

    Latest Articles

    Collapse

    • seqadmin
      Exploring the Dynamics of the Tumor Microenvironment
      by seqadmin




      The complexity of cancer is clearly demonstrated in the diverse ecosystem of the tumor microenvironment (TME). The TME is made up of numerous cell types and its development begins with the changes that happen during oncogenesis. “Genomic mutations, copy number changes, epigenetic alterations, and alternative gene expression occur to varying degrees within the affected tumor cells,” explained Andrea O’Hara, Ph.D., Strategic Technical Specialist at Azenta. “As...
      07-08-2024, 03:19 PM
    • seqadmin
      Exploring Human Diversity Through Large-Scale Omics
      by seqadmin


      In 2003, researchers from the Human Genome Project (HGP) announced the most comprehensive genome to date1. Although the genome wasn’t fully completed until nearly 20 years later2, numerous large-scale projects, such as the International HapMap Project and 1000 Genomes Project, continued the HGP's work, capturing extensive variation and genomic diversity within humans. Recently, newer initiatives have significantly increased in scale and expanded beyond genomics, offering a more detailed...
      06-25-2024, 06:43 AM

    ad_right_rmr

    Collapse

    News

    Collapse

    Topics Statistics Last Post
    Started by seqadmin, 07-16-2024, 05:49 AM
    0 responses
    28 views
    0 likes
    Last Post seqadmin  
    Started by seqadmin, 07-15-2024, 06:53 AM
    0 responses
    34 views
    0 likes
    Last Post seqadmin  
    Started by seqadmin, 07-10-2024, 07:30 AM
    0 responses
    41 views
    0 likes
    Last Post seqadmin  
    Started by seqadmin, 07-03-2024, 09:45 AM
    0 responses
    205 views
    0 likes
    Last Post seqadmin  
    Working...
    X