Probe:	UI-M-BH1-ama-d-11-0-UI.s1
Probe preparation:	Antisense labelled with digoxigenin RNA
Visualized with:	Alkaline phosphatase
Assay notes:	These specimens were also hybridized with a fluorescein-labeled Shh probe (MGI:2110655; detected with TBT/BCIP). The results are reported in Supp. Table 4, whose legend includes a key to the abbreviations used and more fully details the regions examined.

Structure	Level	Pattern	Image	Note
TS19: diencephalon lateral wall mantle layer	Very strong	Non-Uniform	Adcyap1-Shh E11.5-coronal	There is very strong staining in the MZ of the ventral POA, PVH & VMH nuclei, the AVH, supramam zone & TT & strong staining in the dorsal thalamus, prethalamus & dorsal POA. Staining is either absent or ubiquitous in the MZ of anterior & posterior IDs.
TS19: diencephalon lateral wall ventricular layer	Ambiguous		Adcyap1-Shh E11.5-coronal	Staining is either absent or ubiquitous in the ventricular zone of the dorsal thalamus, the prethalamus, dorsal and ventral POAs, the PVH and VMH nuclei, the AVH, the anterior and posterior IDs, the supramam zone and the TT.
TS19: telencephalon mantle layer	Ambiguous		Adcyap1-Shh E11.5-coronal	Staining is either absent or ubiquitous in the postmitotic neurons in the intermediate zone and cortical plate of the cerebral cortex and in the mantle zone of the ganglionic eminences.
TS19: telencephalon ventricular layer	Ambiguous		Adcyap1-Shh E11.5-coronal	Staining is either absent or ubiquitous in the ventricular zone of the cerebral cortex and the ganglionic eminences.

Structure	Level	Pattern	Image	Note
TS20: cerebral cortex intermediate zone	Ambiguous		Adcyap1-Shh E12.5-coronal	Staining is either absent or ubiquitous in the postmitotic neurons in the intermediate zone of the cerebral cortex.
TS20: cerebral cortex ventricular layer	Ambiguous		Adcyap1-Shh E12.5-coronal	Staining is either absent or ubiquitous in the ventricular zone of the cerebral cortex.
TS20: cortical plate	Ambiguous		Adcyap1-Shh E12.5-coronal	Staining is either absent or ubiquitous in the postmitotic neurons in the cortical plate of the cerebral cortex.
TS20: diencephalon mantle layer	Strong		Adcyap1-Shh E12.5-coronal	There is strong staining in the mantle zone of the TT.
TS20: diencephalon ventricular layer	Ambiguous		Adcyap1-Shh E12.5-coronal	Staining is either absent or ubiquitous in the ventricular zone of the TT.
TS20: ganglionic eminence	Weak	Non-Uniform	Adcyap1-Shh E12.5-coronal	There is weak, scattered staining in the ventricular zone of the ganglionic eminences. Staining is either absent or ubiquitous in the mantle zone of the ganglionic eminences.
TS20: hypothalamus mantle layer	Very strong	Non-Uniform	Adcyap1-Shh E12.5-coronal	There is very strong staining in the MZ of the ventral POA and the AVH, strong staining in the posterior ID and moderate staining in the dorsal POA and the anterior ID. Staining is either absent or ubiquitous in the MZ of the PVH nucleus.
TS20: hypothalamus ventricular layer	Ambiguous		Adcyap1-Shh E12.5-coronal	Staining is either absent or ubiquitous in the ventricular zone of the dorsal and ventral POAs, the PVH nucleus, the AVH and anterior and posterior IDs.
TS20: thalamus mantle layer	Very strong	Non-Uniform	Adcyap1-Shh E12.5-coronal	There is very strong staining in the mantle zone of the dorsal thalamus and moderate staining in the prethalamus.
TS20: thalamus ventricular layer	Ambiguous		Adcyap1-Shh E12.5-coronal	Staining is either absent or ubiquitous in the ventricular zone of the dorsal thalamus and prethalamus.

Structure	Level	Pattern	Image	Note
TS22: cerebral cortex intermediate zone	Ambiguous		Adcyap1-Shh E14.5-coronal	Staining is either absent or ubiquitous in the postmitotic neurons in the intermediate zone of the cerebral cortex.
TS22: cerebral cortex ventricular layer	Ambiguous		Adcyap1-Shh E14.5-coronal	Staining is either absent or ubiquitous in the ventricular zone of the cerebral cortex.
TS22: cortical plate	Ambiguous		Adcyap1-Shh E14.5-coronal	Staining is either absent or ubiquitous in the postmitotic neurons in the cortical plate of the cerebral cortex.
TS22: diencephalon mantle layer	Very strong		Adcyap1-Shh E14.5-coronal	There is very strong staining in the mantle zone of the TT.
TS22: diencephalon ventricular layer	Ambiguous		Adcyap1-Shh E14.5-coronal	Staining is either absent or ubiquitous in the ventricular zone of the TT.
TS22: ganglionic eminence	Weak	Non-Uniform	Adcyap1-Shh E14.5-coronal	There is weak, scattered staining in the ventricular zone of the ganglionic eminences. Staining is either absent or ubiquitous in the mantle zone of the ganglionic eminences.
TS22: hypothalamus mantle layer	Very strong	Non-Uniform	Adcyap1-Shh E14.5-coronal	There is very strong staining in the MZ of the AVH and VMH nucleus, strong staining in the PVH nucleus and the posterior ID and moderate staining in the dorsal and ventral POAs. Staining is either absent or ubiquitous in the MZ of the anterior ID.
TS22: hypothalamus ventricular layer	Ambiguous		Adcyap1-Shh E14.5-coronal	Staining is either absent or ubiquitous in the ventricular zone of the dorsal and ventral POAs, the PVH and VMH nuclei, the AVH and anterior and posterior IDs.
TS22: thalamus mantle layer	Weak		Adcyap1-Shh E14.5-coronal	There is weak staining in the mantle zone of the dorsal thalamus and prethalamus.
TS22: thalamus ventricular layer	Ambiguous		Adcyap1-Shh E14.5-coronal	Staining is either absent or ubiquitous in the ventricular zone of the dorsal thalamus and prethalamus.

Structure	Level	Pattern	Image	Note
TS24: cerebral cortex intermediate zone	Very strong		Adcyap1-Shh E16.5-coronal	There is very strong staining in the postmitotic neurons in the intermediate zone of the cerebral cortex.
TS24: cerebral cortex ventricular layer	Ambiguous		Adcyap1-Shh E16.5-coronal	Staining is either absent or ubiquitous in the ventricular zone of the cerebral cortex.
TS24: cortical plate	Very strong		Adcyap1-Shh E16.5-coronal	There is very strong staining in the postmitotic neurons in the cortical plate of the cerebral cortex.
TS24: diencephalon mantle layer	Very strong	Non-Uniform	Adcyap1-Shh E16.5-coronal	There is very strong staining in the mantle zone of the premam and supramam zones and moderate staining in the mam zone.
TS24: diencephalon ventricular layer	Ambiguous		Adcyap1-Shh E16.5-coronal	Staining is either absent or ubiquitous in the ventricular zone of the premam, mam and supramam zones.
TS24: ganglionic eminence	Ambiguous		Adcyap1-Shh E16.5-coronal	Staining is either absent or ubiquitous in the ventricular and mantle zones of the ganglionic eminences.
TS24: hypothalamus mantle layer	Very strong	Non-Uniform	Adcyap1-Shh E16.5-coronal	Staining is very strong in the MZ of the dorsal & ventral POAs, AVH, SCH & VMH nuclei & PH, strong in the PVH nucleus, moderate in the DAH & weak & scattered in the DMH nucleus. Staining is either absent or ubiquitous in the MZ of the ARH nucleus.
TS24: hypothalamus ventricular layer	Ambiguous		Adcyap1-Shh E16.5-coronal	Staining is either absent or ubiquitous in the ventricular zone of the dorsal and ventral POAs, the PVH, SCH, DMH, VMH and ARH nuclei, the AVH, the DAH and the PH.
TS24: thalamus mantle layer	Very strong	Non-Uniform	Adcyap1-Shh E16.5-coronal	There is very strong staining in the mantle zone of the dorsal thalamus. Staining is either absent or ubiquitous in the mantle zone of the prethalamus.
TS24: thalamus ventricular layer	Moderate	Non-Uniform	Adcyap1-Shh E16.5-coronal	There is moderate staining in the ventricular zone of the prethalamus. Staining is either absent or ubiquitous in the ventricular zone of the dorsal thalamus.