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Gene Expression Data
Assay Details
Assay
Reference: J:171421 Vandunk C, et al., Development, maturation, and necessity of transcription factors in the mouse suprachiasmatic nucleus. J Neurosci. 2011 Apr 27;31(17):6457-67
Assay type: RNA in situ
MGI Accession ID: MGI:7660842
Gene symbol: Rora
Gene name: RAR-related orphan receptor alpha
Probe: Rora probe
Probe preparation: Antisense labelled with digoxigenin RNA
Visualized with: Alkaline phosphatase
Results
Specimen 1: postnatal day 0 (more )
Structure Level Pattern Image Note
TS27: suprachiasmatic nucleus Present Widespread 1_RORalpha Expression was detected throughout the entire suprachiasmatic nucleus.
Specimen 2A: postnatal day 15 (more )
Structure Level Pattern Image Note
TS28: suprachiasmatic nucleus Present Regionally restricted 2A RORalpha In contrast to expression at P0, labeling was no longer present throughout the entire suprachiasmatic nucleus; instead, expression was restricted to only the outer 71% of the suprachiasmatic nucleus.
Specimen 2B: postnatal day 15 (more )
Note: Triple labeled: green - Rora; red - Six3 (assay MGI:7660839); blue - Vip (assay MGI:7660862).
Structure Level Pattern Image Note
TS28: suprachiasmatic nucleus Present Regionally restricted 2B Overlay , 2B RORalpha Expression didn't overlap the VIP-expression region.
Specimen not shown P21: postnatal day 21 (more )
Structure Level Pattern Image Note
TS28: suprachiasmatic nucleus Present Regionally restricted Expression was identical to that seen at P15.
Specimen not shown Adult: postnatal adult (more )
Structure Level Pattern Image Note
TS28: suprachiasmatic nucleus Present Regionally restricted Expression was identical to that seen at P15.
Specimen 3A Zeitgeber Time 2: postnatal day 21-23 (more )
Structure Level Pattern Image Note
TS28: suprachiasmatic nucleus Present Regionally restricted 3_RORalpha 2 Expression was detected in the outer shell region.
Specimen 3A Zeitgeber Time 6: postnatal day 21-23 (more )
Note: mid-day
Structure Level Pattern Image Note
TS28: suprachiasmatic nucleus Present Regionally restricted 3_RORalpha 6 Expression was detected in the outer shell region. Temporal variation of expression was noted with peak at ZT6.
Specimen 3A Zeitgeber Time 10: postnatal day 21-23 (more )
Structure Level Pattern Image Note
TS28: suprachiasmatic nucleus Present Regionally restricted 3_RORalpha 10 Expression was detected in the outer shell region.
Specimen 3A Zeitgeber Time 14: postnatal day 21-23 (more )
Structure Level Pattern Image Note
TS28: suprachiasmatic nucleus Present Regionally restricted 3_RORalpha 14 Expression was detected in the outer shell region.
Specimen 3A Zeitgeber Time 18: postnatal day 21-23 (more )
Note: mid-night
Structure Level Pattern Image Note
TS28: suprachiasmatic nucleus Present Regionally restricted 3_RORalpha 18 Expression was detected in the outer shell region.
Specimen 3A Zeitgeber Time 22: postnatal day 21-23 (more )
Structure Level Pattern Image Note
TS28: suprachiasmatic nucleus Present Regionally restricted 3_RORalpha 22 Expression was detected in the outer shell region. Temporal variation of expression was noted with trough at ZT22.
Specimen 3A Zeitgeber Time 26: postnatal day 21-23 (more )
Structure Level Pattern Image Note
TS28: suprachiasmatic nucleus Present Regionally restricted 3_RORalpha 26 Expression was detected in the outer shell region.
Specimen 4 E14.5: embryonic day 14.5 (more )
Structure Level Pattern Image Note
TS22: hypothalamus Present Regionally restricted 4_RORalpha E14.5 A small subset of the ventral most Lhx1/Six3 region was found to express Rora in two of five animals examined.
Specimen 4 E15.5: embryonic day 15.5 (more )
Structure Level Pattern Image Note
TS23: hypothalamus Present Regionally restricted 4_RORalpha E15.5 An increase in the area and approximate number of expressing cells was observed at E15.5.
Specimen 4 E17.5: embryonic day 17.5 (more )
Structure Level Pattern Image Note
TS25: suprachiasmatic nucleus Present Ubiquitous 4_RORalpha E17.5 Staining encompassed the entire suprachiasmatic nucleus.
Specimen 4 P0: postnatal day 0 (more )
Structure Level Pattern Image Note
TS27: suprachiasmatic nucleus Present Ubiquitous 4_RORalpha P0 Staining encompassed the entire suprachiasmatic nucleus.
Specimen 5 Rora+/+: postnatal day 15 (more )
Structure Level Pattern Image Note
TS28: suprachiasmatic nucleus Present 5_RORalpha Rora+/+
Specimen 5 Rorasg/sg: postnatal day 15; Rorasg/Rorasg (more )
Structure Level Pattern Image Note
TS28: suprachiasmatic nucleus Absent 5_RORalpha Rorasg/sg
Specimen 8A Six3flox/flox;Nestin-cre-: embryonic day 18.5; Six3tm2Gco/Six3tm2Gco (more )
Structure Level Pattern Image Note
TS26: suprachiasmatic nucleus Present 8A top RORalpha
Specimen 8A Six3flox/flox;Nestin-cre+: embryonic day 18.5; Six3tm2Gco/Six3tm2Gco, Tg(Nes-cre)1Kln/0 (more )
Note: Conditional mutant.
Structure Level Pattern Image Note
TS26: hypothalamus Absent 8A bottom RORalpha There was no expression in the ventral anterior hypothalamus of the mutant.
Specimen 8B Six3flox/flox;Nestin-cre-: embryonic day 18.5-19.5; Six3tm2Gco/Six3tm2Gco (more )
Structure Level Pattern Image Note
TS26: dorsal lateral geniculate nucleus Present 8B top RORalpha
TS26: ventral posterior medial thalamic nucleus Present 8B top RORalpha
Specimen 8B Six3flox/flox;Nestin-cre+: embryonic day 18.5-19.5; Six3tm2Gco/Six3tm2Gco, Tg(Nes-cre)1Kln/0 (more )
Note: Conditional mutant.
Structure Level Pattern Image Note
TS26: dorsal lateral geniculate nucleus Present 8B bottom RORalpha Mutant mice retained expression.
TS26: ventral posterior medial thalamic nucleus Present 8B bottom RORalpha Mutant mice retained expression.
Specimen 8C Six3flox/flox;Nestin-cre+ Partial loss: embryonic day 15.5; Six3tm2Gco/Six3tm2Gco, Tg(Nes-cre)1Kln/0 (more )
Note: Conditional mutant. The Nestin-cre transgenic exhibited a range of Six3 loss in the developing mouse brain, from complete loss to no loss. This sample demonstrated unilateral loss.
Structure Level Pattern Image Note
TS23: hypothalamus medial zone Present Regionally restricted 8C top RORalpha Expression was detected in the early suprachiasmatic nucleus unilaterally in mice displaying partial Six3 deletion.
Specimen 8C Six3flox/flox;Nestin-cre+ No loss: embryonic day 15.5; Six3tm2Gco/Six3tm2Gco, Tg(Nes-cre)1Kln/0 (more )
Note: Conditional mutant. The Nestin-cre transgenic exhibited a range of Six3 loss in the developing mouse brain, from complete loss to no loss. This sample demonstrated no loss.
Structure Level Pattern Image Note
TS23: hypothalamus medial zone Present Regionally restricted 8C bottom RORalpha Mutant mice that retained expression of Six3 showed prominent expression in the early postmitotic suprachiasmatic nucleus.
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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