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  • mominchen
    Junior Member
    • Oct 2016
    • 4
    #1

    GFF3 files for small RNA

    Hi everyone,
    I'm looking for gtf/gff/gff3 files for small RNA (sequencing run based on a MiSeq with small RNA kit). Does anyone know where to get gff/gtf/gff3 files for these small RNAs: piRNA, miRtrons, endo-siRNA, linc-RNA, lnc-RNA, sno-RNA, snRNA.

    A direct link would be much appriciated.
    Thanks in advance everyone
    Tags: gff gff2 gff3, gtf annotation file, small rna
    • GenoMax
      Senior Member
      • Feb 2008
      • 7142
      #2
      What species are you interested in?

      Take a look at RNA Central.

        Comment

        • mominchen
          Junior Member
          • Oct 2016
          • 4
          #3
          I'm interested in human (hg19/hg20) and mouse. And I already checked RNAcentral, but as far as I saw, there is only fasta available.
          Last edited by mominchen; 04-03-2017, 02:03 PM.

            Comment

            • GenoMax
              Senior Member
              • Feb 2008
              • 7142
              #4
              See this thread.

                Comment

                • mominchen
                  Junior Member
                  • Oct 2016
                  • 4
                  #5
                  Thx, for this help, so basically I found now everything except endo-siRNAs and miRtrons. Any idea where to find them?

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