Probe:	Irx3 cDNA2
Probe preparation:	Antisense RNA
Assay notes:	At least two different probes between 0.5-1.0kb were used for analysis. The authors did not provide the details of which probe(s) were used to obtain these data but did report that the detected patterns were identical.

Structure	Level	Pattern	Image	Note
TS9: extraembryonic component	Present	Regionally restricted		Areas of expression include the lining of the ectoplacental cavity.
TS9: ectoplacental cone	Strong
TS9: embryo	Absent

Structure	Level	Pattern	Image	Note
TS11: embryo ectoderm	Present	Regionally restricted	3C	Expression is present in two symmetrical patches in the anterior region of the embryo.
TS11: extraembryonic component	Present		3C
TS11: chorion ectoderm	Present		3C

Structure	Level	Pattern	Image	Note
TS11: neural ectoderm	Present	Regionally restricted	3F	Exprssion is present in two domains in the margins of the neural plate.
TS11: embryo endoderm	Absent		3F
TS11: embryo mesenchyme	Absent		3F

Structure	Level	Pattern	Image	Note
TS12: embryo mesenchyme	Present	Regionally restricted		Expression is present in two symmetric patches.

Structure	Level	Pattern	Image	Note
TS13: future midbrain	Present		3I	Expression is present in the neural folds.
TS13: future hindbrain	Present		3I
TS13: rhombomere 1	Present		3I
TS13: rhombomere 3	Present		3I
TS13: future spinal cord	Present	Regionally restricted	3I	Expression is present in the anterior/rostral part of the closing neural plate.
TS13: foregut diverticulum	Present		3I	Expression is present in the anterior foregut.

Structure	Level	Pattern	Image	Note
TS13: future hindbrain	Present		3L	Expression is present in the neuroepithelium.
TS13: branchial arch ectoderm	Present		3L	Expression is present in the epithelium of the branchial pouches.

Structure	Level	Pattern	Image	Note
TS15: future midbrain	Strong	Non-Uniform	4C	The rostral limit of expression is at the level of the pretectum. There is strong expression in the tectum. Expression is also found in the tegmentum.
TS15: future hindbrain	Present	Widespread	4C
TS15: head mesenchyme	Present	Regionally restricted	4C	Expression is present in the mesenchyme around the optic vesicle.
TS15: 1st branchial arch ectoderm	Present		4C
TS15: 2nd branchial arch ectoderm	Present		4C
TS15: foregut	Present		4C
TS15: neural tube	Present		4C
TS15: trunk mesenchyme	Present		4C	Expression is present in the lateral plate mesoderm.

Structure	Level	Pattern	Image	Note
TS17: diencephalon lateral wall	Present	Regionally restricted	4F	Expression is present in the posterior forebrain up to the hypothalamic region. It is in the basal plate.
TS17: midbrain	Present	Graded	4F	In the roof, the expression exhibits a posterior to anterior gradient.
TS17: head mesenchyme	Present		4F	Expression in the cephalic mesenchyme includes the nasal pits.
TS17: nasal process mesenchyme	Present		4F	Expression in the cephalic mesenchyme includes the nasal pits.
TS17: otocyst	Present	Widespread	4F	Expression is present in the entire otic vesicle.
TS17: limb	Present		4F
TS17: neural tube	Present		4F
TS17: somite	Absent		4F

Structure	Level	Pattern	Image	Note
TS15: future hindbrain	Present		5C

Structure	Level	Pattern	Image	Note
TS15: future hindbrain	Present		5F
TS15: head mesenchyme	Present	Regionally restricted	5F	Expression is present in the mesenchyme around the eye.
TS15: trigeminal preganglion	Present		5F

Structure	Level	Pattern	Image	Note
TS15: neural tube lateral wall	Present	Widespread	5I	Expression is present in the alar and basal plate.
TS15: neural tube floor plate	Absent		5I
TS15: neural tube roof plate	Absent		5I
TS15: trunk mesenchyme	Present	Regionally restricted	5I	Expression is present in the lateral plate mesoderm.
TS15: tracheal diverticulum	Present		5I

Structure	Level	Pattern	Image	Note
TS15: neural tube lateral wall	Present	Regionally restricted	5L	In caudal regions of the spinal cord, expression is only found in the alar plate.
TS15: neural tube floor plate	Absent		5L
TS15: neural tube roof plate	Absent		5L

Structure	Level	Pattern	Image	Note
TS15: future hindbrain	Present		6C
TS15: otocyst	Present	Regionally restricted	6C	Expression is present in ventromedial region, adjacent to the hindbrain; there is no expression in the dorsal region.
TS15: head mesenchyme	Present	Regionally restricted	6C	Expression is present on the ventral side of the otic vesicle.

Structure	Level	Pattern	Image	Note
TS14: neural tube	Present		7A
TS14: notochord	Present		7A

Structure	Level	Pattern	Image	Note
TS13: neural tube lateral wall	Present	Regionally restricted	7C	Expression is present in ventricular cells close to the lumen of the neural tube in the alar plate; there is no expression in the most dorsal region.
TS13: neural tube roof plate	Absent		7C

Structure	Level	Pattern	Image	Note
TS17: limb	Present	Non-Uniform	7D	Expression is present in a gradient along the dorsoventral and the proximodistal axes, with the highest level of expression in the proximodorsal margin of the limb.

Structure	Level	Pattern	Image	Note
TS17: neural tube lateral wall	Present	Regionally restricted	7E	Expression is present in the ventricular layer and in the motorneuron column of the basal plate. The alar plate also has two restricted areas in the marginal layer.