MHC / xMHC genomic coordinates for rat & mouse

[dhimmel]

Following #4, we now support human, mouse, and rat exports. However, in the species configuration for mouse and rat, we set enable_mhc=False because we haven't yet put in accurate coordinates for the major histocompatibility complex region and extended MHC in these species.

See the code that needs updating for mouse

ensembl-genes/ensembl_genes/species.py

Lines 69 to 76 in f7a0ba0

	# FIXME: mhc coordinates (H2 complex)
	# https://doi.org/10.1002/9780470015902.a0000921.pub4
	enable_mhc=False,
	mhc_chromosome="17",
	mhc_lower=28_510_120,
	mhc_upper=33_480_577,
	xmhc_lower=25_726_063,
	xmhc_upper=33_410_226,

And for rat

ensembl-genes/ensembl_genes/species.py

Lines 86 to 93 in f7a0ba0

	# FIXME: mhc coordinates
	# https://github.com/related-sciences/ensembl-genes/pull/6#discussion_r729259953
	enable_mhc=False,
	mhc_chromosome="20",
	mhc_lower=28_510_120,
	mhc_upper=33_480_577,
	xmhc_lower=25_726_063,
	xmhc_upper=33_410_226,

If anyone stumbles on this issue and can help that would be much appreciated! We will want coordinates in the assembly specified for each species: currently GRCm39 for mouse and Rnor_6.0 for rat.