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Gene Expression Data
Assay Details
Assay
Reference: J:157819 Shimogori T, et al., A genomic atlas of mouse hypothalamic development. Nat Neurosci. 2010;13(6):767-75
Assay type: RNA in situ
MGI Accession ID: MGI:4450720
Gene symbol: Rora
Gene name: RAR-related orphan receptor alpha
Probe: UI-M-CG0p-bne-h-03-0-UI.s1
Probe preparation: Antisense labelled with digoxigenin RNA
Visualized with: Alkaline phosphatase
Results
Specimen 5n: embryonic day 16.5 (more )
Structure Level Pattern Image Note
TS24: hypothalamus Present Regionally restricted 5n Expression is present in the suprachiasmatic nucleus.
Specimen S7y: embryonic day 11.5 (more )
Note: Double labeled: blue - Rora; brown - Shh (assay MGI:4452154).
Structure Level Pattern Image Note
TS19: diencephalon Ambiguous S7_y This specimen was not discussed.
Specimen S7z: embryonic day 12.5 (more )
Note: Double labeled: blue - Rora; brown - Shh (assay MGI:4452154).
Structure Level Pattern Image Note
TS20: hypothalamus Absent S7_z There is no expression in the suprachiasmatic nucleus.
Specimen S7aa: embryonic day 14.5 (more )
Note: Double labeled: blue - Rora; brown - Shh (assay MGI:4452154).
Structure Level Pattern Image Note
TS22: hypothalamus Absent S7_aa There is no expression in the suprachiasmatic nucleus.
Specimen S7bb: embryonic day 16.5 (more )
Note: Double labeled: blue - Rora; brown - Shh (assay MGI:4452154).
Structure Level Pattern Image Note
TS24: hypothalamus Present Regionally restricted S7_bb There is broad expression in the suprachiasmatic nucleus.
Specimen Rora - E11.5: embryonic day 11.5 (more )
Note: Specimen was 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 Ambiguous Rora-Shh E11.5_coronal , Rora-Shh E11.5_sagittal Staining is either absent or ubiquitous in the mantle zone of the dorsal thalamus, prethalamus, dorsal and ventral POAs, the PVH, VMH and ARH nuclei, the AVH, the anterior and posterior IDs, the premam, mam and supramam zones and the TT.
TS19: diencephalon lateral wall ventricular layer Ambiguous Rora-Shh E11.5_sagittal , Rora-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, VMH and ARH nuclei, the AVH, the anterior and posterior IDs, the premam, mam and supramam zones and the TT.
TS19: telencephalon mantle layer Ambiguous Rora-Shh E11.5_coronal , Rora-Shh E11.5_sagittal 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 Rora-Shh E11.5_coronal , Rora-Shh E11.5_sagittal Staining is either absent or ubiquitous in the ventricular zone of the cerebral cortex and the ganglionic eminences.
Specimen Rora - E12.5: embryonic day 12.5 (more )
Note: Specimen was 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
TS20: cerebral cortex intermediate zone Ambiguous Rora-Shh E12.5_coronal , Rora-Shh E12.5_sagittal Staining is either absent or ubiquitous in the postmitotic neurons in the intermediate zone of the cerebral cortex.
TS20: cerebral cortex ventricular layer Ambiguous Rora-Shh E12.5_sagittal , Rora-Shh E12.5_coronal Staining is either absent or ubiquitous in the ventricular zone of the cerebral cortex.
TS20: cortical plate Ambiguous Rora-Shh E12.5_sagittal , Rora-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 Ambiguous Rora-Shh E12.5_coronal , Rora-Shh E12.5_sagittal Staining is either absent or ubiquitous in the mantle zone of the premam, mam and supramam zones and the TT.
TS20: diencephalon ventricular layer Ambiguous Rora-Shh E12.5_sagittal , Rora-Shh E12.5_coronal Staining is either absent or ubiquitous in the ventricular zone of the premam, mam and supramam zones and the TT.
TS20: ganglionic eminence Ambiguous Rora-Shh E12.5_coronal , Rora-Shh E12.5_sagittal Staining is either absent or ubiquitous in the ventricular and mantle zones of the ganglionic eminences.
TS20: hypothalamus mantle layer Ambiguous Rora-Shh E12.5_sagittal , Rora-Shh E12.5_coronal Staining is either absent or ubiquitous in the mantle zone of the dorsal and ventral POAs, the PVH, VMH and ARH nuclei, the AVH and anterior and posterior IDs.
TS20: hypothalamus ventricular layer Ambiguous Rora-Shh E12.5_coronal , Rora-Shh E12.5_sagittal Staining is either absent or ubiquitous in the ventricular zone of the dorsal and ventral POAs, the PVH, VMH and ARH nuclei, the AVH and anterior and posterior IDs.
TS20: thalamus mantle layer Moderate Non-Uniform Rora-Shh E12.5_sagittal , Rora-Shh E12.5_coronal There is moderate staining in the mantle zone of the dorsal thalamus. Staining is either absent or ubiquitous in the mantle zone of the prethalamus.
TS20: thalamus ventricular layer Ambiguous Rora-Shh E12.5_sagittal , Rora-Shh E12.5_coronal Staining is either absent or ubiquitous in the ventricular zone of the dorsal thalamus and prethalamus.
Specimen Rora - E14.5: embryonic day 14.5 (more )
Note: Specimen was 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
TS22: cerebral cortex intermediate zone Ambiguous Rora-Shh E14.5_sagittal , Rora-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 Rora-Shh E14.5_sagittal , Rora-Shh E14.5_coronal Staining is either absent or ubiquitous in the ventricular zone of the cerebral cortex.
TS22: cortical plate Ambiguous Rora-Shh E14.5_coronal , Rora-Shh E14.5_sagittal Staining is either absent or ubiquitous in the postmitotic neurons in the cortical plate of the cerebral cortex.
TS22: diencephalon mantle layer Ambiguous Rora-Shh E14.5_sagittal , Rora-Shh E14.5_coronal Staining is either absent or ubiquitous in the mantle zone of the premam, mam and supramam zones and the TT.
TS22: diencephalon ventricular layer Ambiguous Rora-Shh E14.5_coronal , Rora-Shh E14.5_sagittal Staining is either absent or ubiquitous in the ventricular zone of the premam, mam and supramam zones and the TT.
TS22: ganglionic eminence Ambiguous Rora-Shh E14.5_coronal , Rora-Shh E14.5_sagittal Staining is either absent or ubiquitous in the ventricular and mantle zones of the ganglionic eminences.
TS22: hypothalamus mantle layer Ambiguous Rora-Shh E14.5_coronal , Rora-Shh E14.5_sagittal Staining is either absent or ubiquitous in the mantle zone of the dorsal and ventral POAs, the PVH, VMH and ARH nuclei, the AVH and anterior and posterior IDs.
TS22: hypothalamus ventricular layer Ambiguous Rora-Shh E14.5_sagittal , Rora-Shh E14.5_coronal Staining is either absent or ubiquitous in the ventricular zone of the dorsal and ventral POAs, the PVH, VMH and ARH nuclei, the AVH and anterior and posterior IDs.
TS22: thalamus mantle layer Strong Non-Uniform Rora-Shh E14.5_coronal , Rora-Shh E14.5_sagittal There is strong staining in the mantle zone of the dorsal thalamus. Staining is either absent or ubiquitous in the mantle zone of the prethalamus.
TS22: thalamus ventricular layer Ambiguous Rora-Shh E14.5_sagittal , Rora-Shh E14.5_coronal Staining is either absent or ubiquitous in the ventricular zone of the dorsal thalamus and prethalamus.
Specimen Rora - E16.5: embryonic day 16.5 (more )
Note: Specimen was 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
TS24: cerebral cortex intermediate zone Ambiguous Rora-Shh E16.5_sagittal , Rora-Shh E16.5_coronal Staining is either absent or ubiquitous in the postmitotic neurons in the intermediate zone of the cerebral cortex.
TS24: cerebral cortex ventricular layer Ambiguous Rora-Shh E16.5_sagittal , Rora-Shh E16.5_coronal Staining is either absent or ubiquitous in the ventricular zone of the cerebral cortex.
TS24: cortical plate Ambiguous Rora-Shh E16.5_sagittal , Rora-Shh E16.5_coronal Staining is either absent or ubiquitous in the postmitotic neurons in the cortical plate of the cerebral cortex.
TS24: diencephalon mantle layer Ambiguous Rora-Shh E16.5_sagittal , Rora-Shh E16.5_coronal Staining is either absent or ubiquitous in the mantle zone of the premam, mam and supramam zones.
TS24: diencephalon ventricular layer Ambiguous Rora-Shh E16.5_sagittal , Rora-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 Rora-Shh E16.5_coronal , Rora-Shh E16.5_sagittal Staining is either absent or ubiquitous in the ventricular and mantle zones of the ganglionic eminences.
TS24: hypothalamus mantle layer Ambiguous Rora-Shh E16.5_coronal , Rora-Shh E16.5_sagittal Staining is either absent or ubiquitous in the mantle zone of the dorsal and ventral POAs, the PVH, SCH, DMH, VMH and ARH nuclei, the AVH, the DAH and the PH.
TS24: hypothalamus ventricular layer Very strong Non-Uniform Rora-Shh E16.5_coronal , Rora-Shh E16.5_sagittal There is very strong staining in the ventricular zone of the SCH nucleus. Staining is either absent or ubiquitous in the ventricular zone of the dorsal and ventral POAs, the PVH, DMH, VMH and ARH nuclei, the AVH, the DAH and the PH.
TS24: thalamus mantle layer Ambiguous Rora-Shh E16.5_sagittal , Rora-Shh E16.5_coronal Staining is either absent or ubiquitous in the mantle zone of the dorsal thalamus and prethalamus.
TS24: thalamus ventricular layer Ambiguous Rora-Shh E16.5_coronal , Rora-Shh E16.5_sagittal Staining is either absent or ubiquitous in the ventricular zone of the dorsal thalamus and prethalamus.
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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11/19/2024
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