Seqanswers Leaderboard Ad

Collapse

Announcement

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

  • Synthesis of i5 index

    Hi everyone,
    i am new to the field and I have a problem of running out of the E505 and E506 index (of the Nextera DNA Exome (formerly TruSeq Rapid Exome Kit), while illumina said they dont offer individual purchase of these oligos. Therefore, i would like to order the sequence on my own.
    I wonder if anyone can give me some advise how should i do it? i can only find the specific sequence of the index.

    [N/S/E]505 GTAAGGAG CTCCTTAC
    [N/S/E]506 ACTGCATA TATGCAGT

    thanks a lot.

  • #2
    If you already have the sequence, I don't see what additional hurdles you have in ordering the oligos. I'm from the Philippines and we order custom-made oligos from IDT or Macrogen (South Korea) through local distributors.

    Comment


    • #3
      Hi Pauline,
      Thanks a lot for your comments. I have read some threads here that it seems that some modification is required? Adding phosphate group to 5'' end etc.
      So, i just see if anyone know any modification i might need after ordering the oligos.

      Comment


      • #4
        You have seen this info from Illumina:
        https://support.illumina.com/content...0002694-06.pdf ?

        Does this kit use transposase (no oligo modification required in this case) or adapter ligation?

        Comment


        • #5
          It seems you are right. The adapters are modified to have a phosphate group on the 5' and phosphorothioate on the 3' end before the terminal T to protect it from 3' -> 5' exonuclease activity.

          I am not sure about the Nextera Exome adapters but this article describes the structure of adapters for Truseq and Nextera:
          http://bioinformatics.cvr.ac.uk/blog...mer-sequences/

          Comment

          Latest Articles

          Collapse

          • 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
          • seqadmin
            Techniques and Challenges in Conservation Genomics
            by seqadmin



            The field of conservation genomics centers on applying genomics technologies in support of conservation efforts and the preservation of biodiversity. This article features interviews with two researchers who showcase their innovative work and highlight the current state and future of conservation genomics.

            Avian Conservation
            Matthew DeSaix, a recent doctoral graduate from Kristen Ruegg’s lab at The University of Colorado, shared that most of his research...
            03-08-2024, 10:41 AM

          ad_right_rmr

          Collapse

          News

          Collapse

          Topics Statistics Last Post
          Started by seqadmin, Yesterday, 06:37 PM
          0 responses
          10 views
          0 likes
          Last Post seqadmin  
          Started by seqadmin, Yesterday, 06:07 PM
          0 responses
          9 views
          0 likes
          Last Post seqadmin  
          Started by seqadmin, 03-22-2024, 10:03 AM
          0 responses
          51 views
          0 likes
          Last Post seqadmin  
          Started by seqadmin, 03-21-2024, 07:32 AM
          0 responses
          67 views
          0 likes
          Last Post seqadmin  
          Working...
          X