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  1. User Support
  2. HELP-283

Trouble loading custom reference genome

    Details

      Description

      Hi! I am trying to load Escherichia coli str. K-12 substr. MG1655, complete genome GenBank: U00096.3 as my reference genome. I can download the genome from NCBI as a genbank (gbk) or a FASTA but IGB will only let me open the genome as a FASTA. When I do this, IGB only displays the nucleotide sequences and not the gene annotations. I see that IGB will allow me to open fna files but I am not sure how to get that file type. Also, I see IGB has Escherichia coli str. K-12 substr. MG1655 from Jan 2012 as a reference but I couldn't find out what version/ GenBank number this was.

      Reporter: Colleen Bianco
      E-mail: cbianco2@illinois.edu

        Attachments

        1. AddChromosmeTXT.png
          AddChromosmeTXT.png
          376 kB
        2. annotations.gb
          4.78 MB
        3. chromosome.txt
          0.0 kB
        4. sequence.fasta
          4.49 MB

          Activity

          support Support (Inactive) created issue -
          mason Mason Meyer (Inactive) made changes -
          Field Original Value New Value
          Priority Blocker [ 1 ]
          Attachment sequence.fasta [ 14028 ]
          Attachment annotations.gb [ 14029 ]
          Attachment chromosome.txt [ 14030 ]
          Attachment AddChromosmeTXT.png [ 14031 ]
          ann.loraine Ann Loraine made changes -
          Workflow Loraine Lab Workflow [ 17866 ] Fall 2019 Workflow Update [ 20471 ]
          ann.loraine Ann Loraine made changes -
          Workflow Fall 2019 Workflow Update [ 20471 ] Revised Fall 2019 Workflow Update [ 22663 ]
          Status Open [ 1 ] To-Do [ 10305 ]

            People

            • Assignee:
              ann.loraine Ann Loraine
              Reporter:
              support Support (Inactive)
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              Dates

              • Created:
                Updated: