pax6a notes (DANRE, P26630)

2026-09-27 session log

• Deep research FAILED for this gene (Edison: 402 Payment Required; OpenAI key invalid). Not retried.
  Literature research done manually via Europe PMC REST searches
  (pax6a AND pax6b, pax6b AND zebrafish, pax6 AND (teleost OR medaka OR gar) AND duplicat*).
• Newly cached PMIDs: 18485195, 24951566, 23359656, 37094695, 27387288, 12917294, 8900176, 7946344.

Key facts with provenance

• Naming: pax6a = old pax6.1 / pax[zf-a]
  PMID:18282108
• Protein function equal to pax6b:
  PMID:18282108
• Expression: broad neural, not pancreas
  PMID:18282108
  PMID:18485195
• Copy-specific habenula role:
  PMID:27387288
• CRISPR allele (exons 8-12 deleted, PTC) and dose-dependent anterior segment / neural crest phenotypes:
  PMID:32555736
  PMID:32555736
• Retinal regeneration: PMID:20152834
  Rods not affected: PMID:20152834

GOA accession artefact (important)

QuickGO shows that ZFIN's experimental annotations to pax6a (IDA GO:0000981 PMID:18282108 and PMID:9831649,
IDA GO:0045944, IMP GO:0021986 habenula development PMID:27387288, IGI GO:0001755 PMID:32555736,
IGI GO:0021538/GO:0010468 PMID:24528677, IMP GO:0009952/GO:0030902 PMID:17010333, IGI GO:0030900
PMID:12917294, IDA GO:0043565 PMID:8900176, IDA GO:0005634 PMID:7946344) are attached to RefSeq-derived
TrEMBL accessions (A0A8M3AP00, A0A8M3AZJ7, A0A8M3B718, ...) and not to Swiss-Prot P26630. The fetched GOA
file therefore makes pax6a look experimentally unstudied relative to pax6b. I added three of these as NEW
(habenula development, epithalamus development, neural crest cell migration) where I read the evidence;
the MF IDAs are already covered by accepted IBA/IEA rows. PMID:12917294, 8900176 and 7946344 are
abstract-only and their abstracts do not clearly show the pax6a claim, so they were not added.

Decisions

• REMOVE IBA GO:0003309 (beta-cell differentiation): pax6a not expressed in pancreas (expression partition).
• REMOVE IMP GO:0060221 (rod differentiation): contradicted by the source paper.
• MARK_AS_OVER_ANNOTATED IMP GO:0042670 (cone differentiation): effect on pax6a not significant, secondary.
• MODIFY IMP GO:0008284 -> GO:2000179 positive regulation of neural precursor cell proliferation.