XB-FEAT-853792

prom1

This is the community wiki page for the gene prom1 please feel free to add any information that is relevant to this gene that is not already captured elsewhere in Xenbase

gene annotation notes

06OCT2026

Note that [until today] the X.laevis prom3.L gene was misnamed/wrongly identified in the v10 genome release as prom1.L. Also. X. laevis S genes where not recognized or represented on Xenbase, and the prom3 genes were not named as such, but carried an uniformative LOC symbol.

To correct this, according to/with reference to the findings reported by Han & Papermaster (2011), there are 3 prominin genes in X. laevis & X. tropicalis: prom1, prom2 and prom3.

Xb curators agree with published assessment, as it is also supported by synteny and BLASTp. We have renamed genes and moved some gene models to accurately reflect this gene family as follows:

True "prom1" are on Chr1/1L, shown on XB-GENEPAGE-853792:
Xla.prom1.L gene ID:100316924 (previously referred to as proml1.L on NCBI, but not repressented on Xenbase).
Xtr.prom1 gene ID:100036621

True "prom2" genes are on Chr3/3L/3S:
Xla.prom2.L gene ID: 100316926
Xtr.prom2 gene ID:100485371
Note that  there is a partial BLASTp hit to a Xla.S model (432bp; Xlaev1017014929m.g) which potentially may be recognised asa pseudogene, prom2p.S. 
No renaming or models moves were necessary for prom2.

True "prom3" genes are on Chr7/7L/7S, shown on XB-GENEPAGE-29079342:
Xla.prom3.L gene ID:100316925 (previously mis-named prom1.L)
Xla.prom3.S gene ID: 108697433
Xtr.prom3 gene ID: 100488690
NOTE prom3 are NOT represent in mammals!
We have added the Chr3.S model to the genepage, and moved the X.laevis Chr3.L model to this genepage from XB-GENEPAGE-853792 (previously called prom1.L).

Reference: Zhou Han & David S Papermaster. Mol Vis. 2011:17:1381-96. Epub 2011 May 25.Identification of three prominin homologs and characterization of their messenger RNA expression in Xenopus laevis tissues.  PMID: 21655362 PMCID: PMC3108902

We sincerely thank Dr. Brittany Carr at the University of Alberta for drawing our attention to this messed up nomenlcature!!

-CJZ