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Exploring a genomic region in Gilthead seabream

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Exploring a genomic region in Gilthead seabream

  1. Go to the region from 9,205,000 to 9,554,000 bp on Gilthead seabream chromosome 16.

  2. Zoom in on the slc25a21 gene.

  3. Configure this page to turn on the RefSeq GFF3 annotation import track in this view. What are the differences between the slc25a1 transcripts annotated by Ensembl and NCBI RefSeq?

  1. Go to the Ensembl homepage. Select Gilthead seabream from the Species drop-down list and type 16:9205000-9554000 in the text box. Click Go.

  2. Draw with your mouse a box encompassing the slc25a21 transcripts. Click on Jump to region in the pop-up menu.

  3. Click Configure this page in the side menu (or on the cog wheel icon in the top left hand side of the bottom image). Go into Genes in the left-hand menu then select RefSeq GFF3 annotation import. Save and close the new configuration by clicking on ✓ (or anywhere outside the pop-up window).

    There are two slc25a21 transcripts annotated by NCBI RefSeq, but three transcripts annotated by Ensembl. The coding sequences of the two transcripts annotated by NCBI RefSeq are the same as the slc25a21-202 transcript (ENSSAUT00010071831.1), with differences in the length of the 5’ and 3’ UTRs. slc25a21-201 (ENSSAUT00010071830.1) has a different exon structure for its final exon, with an extended coding sequence and 3’ UTR.