Talk:Telomerase RNA component

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Merge proposals

I'm proposing the merger of the Vertebrate telomerase RNA, Ciliate telomerase RNA and the Telomerase RNA component since these are orthologous RNA genes. As far as I can tell the 'vertebrate telomerase' and 'telomerase RNA component' are referring to the same entity -- the only real difference is that the articles are derived from two different databases (entrez and rfam) that annotate genes. The 'telomerase RNA component' article itself is slightly human-centric otherwise these are the same gene. The 'ciliate telomerase RNA' article is referring to the RNA gene that performs the same function in ciliates.--Paul (talk) 20:00, 6 October 2009 (UTC)[reply]

I think this merger makes sense. --Alvestrand (talk) 07:02, 7 October 2009 (UTC)[reply]

Support. As with the Gene Wiki articles, it makes sense to combine orthologs from different species in the same article since they share high similarity in both seqeuence and function. Boghog (talk) 13:51, 11 October 2009 (UTC)[reply]

The {{Infobox gene}} template is problematic, I think

I tried to add a caption for the image displayed in the box,^[a] but apparently it doesn't have any parameters at all, but that's not the whole problem I have for it. It seems to me that the whole thing was designed to be human centric from the start; and it auto populates the box based on Wikidata (site) info – which I believe is often inaccurate or incomplete when it comes to molecular biology (WP:MOLBIO) and microbiology (WP:MICRO), and I doubt people often visit the site in order to change/fix things there. Since I have no idea how this infobox chose specifically the pseudoknot part of the TERT to be the image, I don't know what to do to change that.

^ I was going to add "Ribbon diagram of the P2b-P3 pseudoknot from human telomerase RNA" so it won't mislead readers to believe that the image depicts the entirety of the RNA component.

CheckNineEight (talk) 03:35, 24 October 2025 (UTC)[reply]

Hi. Thanks for your questions. You are correct that the information in {{infobox gene}} is populated from Wikidata. If you want to change the figure displayed in this article, first upload the figure to Wikimedia Commons. Then replace File:PDB 1ymo EBI.png image statement in TERC (Q18031947) with the name of the file that you uploaded to Wikimedia Commons. Yes, the Gene Wiki was designed to be human centric, but is also meant to include orthologs from other species. The infobox displays a link to HomoloGene which is out of date. Using TERC as an example:

Current link: https://omabrowser.org/oma/vps/ENSG00000277925
Should be updated to https://www.ncbi.nlm.nih.gov/datasets/gene/7012/#orthologs

The reason the NCBI Gene page for TERC (Gene ID: 7012) does not show listed orthologs is that NCBI’s ortholog detection pipeline (Orthologous Groups and HomoloGene) excludes non-coding RNA genes such as TERC from its automated comparison models.

The updated link does work for protein coding genes, see for example https://www.ncbi.nlm.nih.gov/datasets/gene/7157/#orthologs

As far as how was Wikidata populated with gene data, this was done by Wikidata:WikiProject Gene Wiki, and more specifically ProteinBoxBot (Wikidata). Unfortunately it looks like the bot hasn't been run since June of 2022. See User contributions for ProteinBoxBot. So I believe the gene WikiData was accurate as of June 2022. The source code for the bot is available, so in principle, this could be run again, but it would take some work to do this. Boghog (talk) 06:27, 24 October 2025 (UTC)[reply]

Correction to above. The current ortholog link is to the Orthologous MAtrix (OMA) browser, which works, but does have its limitations. I have requested that this link be changed to the NCBI Ortholog database which is more responsive and contains more complete information. Boghog (talk) 09:21, 24 October 2025 (UTC)[reply]

Is there a way to add a caption for the infobox image? CheckNineEight (talk) 07:36, 24 October 2025 (UTC)[reply]

In Module:Infobox gene, it states This is a place holder for the image caption, which is stored in wikicommons comments unsure how to access function p.renderCaption(entity). So unfortunately the answer appears to be no. It may be possible to add this functionality to the infobox Lua script, but I am not sure how to go about this either. Boghog (talk) 09:15, 24 October 2025 (UTC)[reply]

[1] I was going to add "Ribbon diagram of the P2b-P3 pseudoknot from human telomerase RNA" so it won't mislead readers to believe that the image depicts the entirety of the RNA component.

[a]