Aph1a (rat) review notes

• Fetched A0ABK0KYA7 (matches requested accession; RGD:1311546, GeneID 365872). 33 GOA rows
  in the stub (34 GOA lines; two SynGO presynaptic-membrane IDA lines differ only in ECO).
• No deep research available; manual summary in Aph1a-deep-research-manual.md.
• Key experimental rat data: PMID:20126630 (rat brain fractionation; Aph-1aL in synaptic
  membrane, synaptic vesicle, endosome-enriched fractions) and PMID:20145246 (endogenous
  rat Aph-1 binds Jagged-1 in E13 embryo microsomes PMID:20145246).
• Core function modelled as in human APH1A review: protein-macromolecule adaptor
  (assembly scaffold) plus contributes_to aspartic endopeptidase activity, intramembrane
  cleaving (presenilin is the catalytic subunit).
• GO:0006509 ectodomain proteolysis is propagated from a human HGNC-UCL IDA
  (PMID:15274632); gamma-secretase performs intramembrane cleavage after shedding, so
  MODIFY to GO:0031293 and record a source defect.
• SynGO IEP row for presynaptic membrane: location from fractionation/imaging, not an
  expression pattern; recorded WRONG_EVIDENCE_CODE (CHECK), as in the rat Gria2 precedent.
• GO:0007220 Notch receptor processing is is_a protein metabolic process only (not under
  GO:0007219 or GO:0016485 in the current GO build), checked with OAK.
• Substrate binding (APP/Jagged) has no informative MF term short of protein binding;
  not proposed as NEW.

2026-10-28: core function locations (PR #5679 review)

The core function listed only ER membrane, which is where the complex assembles. The rat-brain fractionation (PMID:20126630) puts gamma-secretase activity mainly with the early endosome marker syntaxin 13 and partly with the plasma membrane marker N-cadherin, so the core locations are now early endosome and plasma membrane, and the early endosome IDA row is ACCEPT.

The plasma membrane ISO row now also moves from KEEP_AS_NON_CORE to ACCEPT, so its reason agrees with the core function, which names plasma membrane as a location.