pirl-unc / mhcgnomes / 33481479204
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coverage: 89.417%. Remained the same
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Add the rabbit class I locus series Orcu-U1..U9 (#170) (#171)

I filed #170 after finding Orcu-U2*05:02:01:01 would not parse, and handed it
back on the grounds that U is the teleost class I convention and so deserved
the literature rather than an accession title. Reading further settles it the
other way.

GenBank has 104 Oryctolagus cuniculus MHC class I records across nine loci,
Orcu-U1 through Orcu-U9, submitted alongside Zhang et al., "MHC-I diversity
enables rapid adaptation during a viral pandemic in wild rabbit populations",
PNAS 2026;123:e2532064123 (PMID 42113988). That is a system, not a submitter's
label. The U prefix being a non-mammalian convention is what made it worth
checking and is not evidence against it.

Filed as class I with no subclass: the records say "MHC class I antigen" and
nothing establishes which of the nine are classical. Placed on the species
rather than on Oryctolagus sp., because that is what the records name; the
A/A1/A2/A3/D series stays on the genus node under the RLA prefix (PMID
32522857), and how the two relate is the remaining half of #170.

The older bare form, 21 records labelling the gene with the species code and
writing alleles as Orcu*19, is deliberately not added. Making a prefix its own
gene name is the shape that put a class II beta chain symbol in the prefix
column for the greater prairie chicken (#165).

Bare U1 and U2 stop resolving. Rattus sp. declares both, so they are now
genuinely ambiguous; nothing attests the bare form for either species and the
rat won them only by being the sole declarer. RT1-U1 and Orcu-U1 both still
work, and U3 through U9 have one declarer and resolve bare.

0 of 36,752 corpus names change. Of 1,080 gene forms, 4 stop resolving and 14
start.

Claude-Session: https://claude.ai/code/session_012s4siLj2Vm33eNMGjNSazH

4250 of 4753 relevant lines covered (89.42%)

0.89 hits per line

Jobs
ID Job ID Ran Files Coverage
1 33481479204.1 41
89.42
 GitHub Action Run
Source Files on build 33481479204