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Gene Expression Data
Assay Details
Assay
Reference: J:336866 Puelles L, et al., The Midbrain Preisthmus: A Poorly Known Effect of the Isthmic Organizer. Int J Mol Sci. 2023 Jun 5;24(11)
Assay type: RNA in situ
MGI Accession ID: MGI:7664405
Gene symbol: Otx2
Gene name: orthodenticle homeobox 2
Probe: Otx2_riboprobe
Probe preparation: Antisense labelled with digoxigenin RNA
Visualized with: Alkaline phosphatase
Assay notes: The authors analyzed data from the Allen Developing Mouse Brain.
Results
Specimen 2a: embryonic day 11.5 (more )
Note: Sample was postfixed in 4% paraformaldehyde.
Structure Level Pattern Image Note
TS19: midbrain Present 2a
TS19: midbrain mantle layer Absent 2a
Specimen 2b: embryonic day 11.5 (more )
Note: Sample was postfixed in 4% paraformaldehyde.
Structure Level Pattern Image Note
TS19: midbrain Present 2b
TS19: midbrain mantle layer Absent 2b
Specimen 2c: embryonic day 11.5 (more )
Note: Sample was postfixed in 4% paraformaldehyde.
Structure Level Pattern Image Note
TS19: midbrain Present 2c
TS19: midbrain mantle layer Absent 2c
Specimen 2d: embryonic day 11.5 (more )
Note: Sample was postfixed in 4% paraformaldehyde.
Structure Level Pattern Image Note
TS19: mesomere 1 Present 2d
TS19: mesomere 2 Present 2d
TS19: midbrain mantle layer Absent 2d
Specimen 2e: embryonic day 11.5 (more )
Note: Sample was postfixed in 4% paraformaldehyde.
Structure Level Pattern Image Note
TS19: mesomere 1 Present 2e
TS19: mesomere 2 Present 2e
TS19: midbrain mantle layer Absent 2e
Specimen 2f: embryonic day 11.5 (more )
Note: Sample was postfixed in 4% paraformaldehyde.
Structure Level Pattern Image Note
TS19: mesomere 1 Present 2f
TS19: mesomere 2 Present 2f
TS19: midbrain mantle layer Absent 2f
Specimen 4a: embryonic day 13.5 (more )
Note: Sample was postfixed in 4% paraformaldehyde.
Structure Level Pattern Image Note
TS22: superior colliculus Present Regionally restricted 4a Sagittal sections showed a positive and elongated dorsorostral area that corresponds to the superior colliculus, which included the still more rostral 'tectal gray' formation.
TS22: inferior colliculus Absent 4a Staining limits ventrocaudally with a mantle domain devoid of signal, which represents the inferior colliculus and its rostral continuation in the interstitial bed nucleus of the brachium of the inferior colliculus.
TS22: mesomere 2 Present Regionally restricted 4a Ventrocaudal expression was observed in the preisthmus or mesomere 2 derivative. This domain seemed wider dorsally ('tor') close to the roof plate. The domain thins out ventralwards and displays a sharp boundary with the Otx2-negative isthmus.
TS22: midbrain-hindbrain junction Absent 4a
Specimen 4b: embryonic day 13.5 (more )
Note: Sample was postfixed in 4% paraformaldehyde.
Structure Level Pattern Image Note
TS22: superior colliculus Present Regionally restricted 4b Sagittal sections showed a positive and elongated dorsorostral area that corresponds to the superior colliculus, which included the still more rostral 'tectal gray' formation.
TS22: inferior colliculus Absent 4b Staining limits ventrocaudally with a mantle domain devoid of signal, which represents the inferior colliculus and its rostral continuation in the interstitial bed nucleus of the brachium of the inferior colliculus.
TS22: mesomere 2 Present Regionally restricted 4b Ventrocaudal expression was observed in the preisthmus or mesomere 2 derivative. This domain seemed wider dorsally ('tor') close to the roof plate. The domain thins out ventralwards and displays a sharp boundary with the Otx2-negative isthmus.
TS22: midbrain-hindbrain junction Absent 4b
Specimen 4c: embryonic day 13.5 (more )
Note: Sample was postfixed in 4% paraformaldehyde.
Structure Level Pattern Image Note
TS22: superior colliculus Present 4c
TS22: inferior colliculus Absent 4c
TS22: mesomere 2 Present 4c
Specimen 4d: embryonic day 13.5 (more )
Note: Sample was postfixed in 4% paraformaldehyde.
Structure Level Pattern Image Note
TS22: superior colliculus Present 4d
TS22: inferior colliculus Absent 4d
TS22: mesomere 2 Present 4d
TS22: midbrain-hindbrain junction Absent 4d
Specimen 4e: embryonic day 13.5 (more )
Note: Sample was postfixed in 4% paraformaldehyde.
Structure Level Pattern Image Note
TS22: superior colliculus Present 4e
TS22: inferior colliculus Absent 4e
TS22: mesomere 2 Present 4e
TS22: midbrain-hindbrain junction Absent 4e
Specimen 4f: embryonic day 13.5 (more )
Note: Sample was postfixed in 4% paraformaldehyde.
Structure Level Pattern Image Note
TS22: superior colliculus Present 4f
TS22: inferior colliculus Absent 4f
TS22: mesomere 2 Present 4f
TS22: midbrain-hindbrain junction Absent 4f
Specimen 4g: embryonic day 13.5 (more )
Note: Sample was postfixed in 4% paraformaldehyde.
Structure Level Pattern Image Note
TS22: superior colliculus Present 4g
TS22: inferior colliculus Absent 4g
TS22: mesomere 2 Present 4g
TS22: midbrain-hindbrain junction Absent 4g
Specimen 7i: embryonic day 15.5 (more )
Note: Sample was postfixed in 4% paraformaldehyde.
Structure Level Pattern Image Note
TS23: superior colliculus Present 7i
TS23: mesomere 2 Present 7i
Specimen 7j: embryonic day 15.5 (more )
Note: Sample was postfixed in 4% paraformaldehyde.
Structure Level Pattern Image Note
TS23: superior colliculus Present 7j
TS23: mesomere 2 Present 7j
Specimen 7k: embryonic day 15.5 (more )
Note: Sample was postfixed in 4% paraformaldehyde.
Structure Level Pattern Image Note
TS23: superior colliculus Present 7k
TS23: mesomere 2 Present 7k
TS23: midbrain ventricular layer Present Regionally restricted 7k Expression was detected in the ventricular zone of the inferior colliculus.
Specimen 7l: embryonic day 15.5 (more )
Note: Sample was postfixed in 4% paraformaldehyde.
Structure Level Pattern Image Note
TS23: superior colliculus Present 7l
TS23: mesomere 2 Present Regionally restricted 7l A paramedian parasagittal section illustrated the Otx2 signal in the basal preisthmus, representing a quite narrow transverse and radial interstice placed in a retrorubral position.
TS23: midbrain ventricular layer Present Regionally restricted 7l Expression was detected in the ventricular zone of the inferior colliculus.
Specimen 7m: embryonic day 15.5 (more )
Note: Sample was postfixed in 4% paraformaldehyde.
Structure Level Pattern Image Note
TS23: mesomere 2 Present Regionally restricted 7m Dorsoventral horizontal section illustrated the wide dorsal extent of the positive alar preisthmic domain.
TS23: inferior colliculus Absent 7m
Specimen 7n: embryonic day 15.5 (more )
Note: Sample was postfixed in 4% paraformaldehyde.
Structure Level Pattern Image Note
TS23: mesomere 2 Present Regionally restricted 7n More ventrally, the alar preisthmus gets reduced to a narrower Otx2-positive band that underlines the caudal aspect of the inferior colliculus and limits caudally with the negative isthmus domain.
TS23: midbrain-hindbrain junction Absent 7n
Specimen 7o: embryonic day 15.5 (more )
Note: Sample was postfixed in 4% paraformaldehyde.
Structure Level Pattern Image Note
TS23: mesomere 2 Present Regionally restricted 7o More ventrally, the alar preisthmus gets reduced to a narrower Otx2-positive band that underlines the caudal aspect of the inferior colliculus and limits caudally with the negative isthmus domain.
TS23: midbrain-hindbrain junction Absent 7o
Specimen 7p: embryonic day 15.5 (more )
Note: Sample was postfixed in 4% paraformaldehyde.
Structure Level Pattern Image Note
TS23: mesomere 2 Present Regionally restricted 7p More ventrally, the alar preisthmus gets reduced to a narrower Otx2-positive band that underlines the caudal aspect of the inferior colliculus and limits caudally with the negative isthmus domain.
TS23: midbrain-hindbrain junction Absent 7p
Specimen 9a: embryonic day 18.5 (more )
Note: Sample was postfixed in 4% paraformaldehyde.
Structure Level Pattern Image Note
TS26: superior colliculus Present Regionally restricted 9a Labeling was restricted to intermediate and superficial cell layers, plus the ventricular zone.
TS26: mesomere 2 Present 9a
TS26: inferior colliculus Present Regionally restricted 9a The largely negative inferior colliculus/brachium of the inferior colliculus complex only appears labeled at its ventricular zone.
TS26: periaqueductal grey Absent 9a
Specimen 9b: embryonic day 18.5 (more )
Note: Sample was postfixed in 4% paraformaldehyde.
Structure Level Pattern Image Note
TS26: superior colliculus Present Regionally restricted 9b Labeling was restricted to intermediate and superficial cell layers, plus the ventricular zone.
TS26: mesomere 2 Present Regionally restricted 9b Expression was detected in the preisthmus. The dorsalmost Otx2 section illustrates dorsomedial continuity of the positive preisthmic mantle with symmetric bulges at the dorsocaudal midbrain midline.
TS26: inferior colliculus Present Regionally restricted 9b The largely negative inferior colliculus/brachium of the inferior colliculus complex only appears labeled at its ventricular zone.
TS26: periaqueductal grey Absent 9b
Specimen 9c: embryonic day 18.5 (more )
Note: Sample was postfixed in 4% paraformaldehyde.
Structure Level Pattern Image Note
TS26: superior colliculus Present Regionally restricted 9c Labeling was restricted to intermediate and superficial cell layers, plus the ventricular zone.
TS26: mesomere 2 Present 9c
TS26: midbrain Present Regionally restricted 9c Only part of the ependymal ventricular zone of the posterior intraencephalic sulcus expresses Otx2.
TS26: inferior colliculus Present Regionally restricted 9c The inferior colliculus core is negative and appears surrounded deeply and superficially by a dispersed shell of positive cells.
TS26: midbrain-hindbrain junction Present Regionally restricted 9c A number of positive preisthmic cells disperse in the neighboring isthmic mantle.
TS26: periaqueductal grey Absent 9c
Specimen 9d: embryonic day 18.5 (more )
Note: Sample was postfixed in 4% paraformaldehyde.
Structure Level Pattern Image Note
TS26: superior colliculus Present Regionally restricted 9d Labeling was restricted to intermediate and superficial cell layers, plus the ventricular zone.
TS26: mesomere 2 Present 9d
TS26: midbrain Present Regionally restricted 9d Only part of the ependymal ventricular zone of the posterior intraencephalic sulcus expresses Otx2.
TS26: inferior colliculus Present Regionally restricted 9d The inferior colliculus core is negative and appears surrounded deeply and superficially by a dispersed shell of positive cells.
TS26: midbrain-hindbrain junction Present Regionally restricted 9d A number of positive preisthmic cells disperse in the neighboring isthmic mantle.
TS26: periaqueductal grey Absent 9d
Contributing Projects:
Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Models of Human Cancer database (MMHCdb) (formerly Mouse Tumor Biology (MTB)), Gene Ontology (GO)
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03/25/2025
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