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Gene Expression Data
Assay Details
Assay
Reference: J:111613 Marin F, et al., The expression of Scratch genes in the developing and adult brain. Dev Dyn. 2006 Jun 13;235(9):2586-2591
Assay type: RNA in situ
MGI Accession ID: MGI:3690890
Gene symbol: Scrt1
Gene name: scratch family zinc finger 1
Probe: Scrt1 probe1
Probe preparation: Antisense RNA
Assay notes: 50-100 microns vibratome sections.
Results
Specimen 1A: embryonic day 9.5 (more )
Structure Level Pattern Image Note
TS15: future hindbrain Present Regionally restricted 1A Expression is in the incipient mantle layer.
Specimen Not shown: embryonic day 9.5 (more )
Structure Level Pattern Image Note
TS15: future forebrain Absent
TS15: future midbrain Absent
Specimen 1E: embryonic day 10.5 (more )
Structure Level Pattern Image Note
TS17: future spinal cord Present 1E
Specimen 1H: embryonic day 12.5 (more )
Structure Level Pattern Image Note
TS20: midbrain Present Regionally restricted 1H Expression is in the parabasal plate.
Specimen 1J: embryonic day 12.5 (more )
Structure Level Pattern Image Note
TS20: midbrain mantle layer Strong 1J
TS20: thalamus mantle layer Strong 1J
Specimen 1L: postnatal day 0 (more )
Structure Level Pattern Image Note
TS27: forebrain Present Regionally restricted 1L Expression is in the subventricular zone, basal nucleaus of the stria terminalis, substantia innominate, prethalamus, and pretectum, and is absent in the basal plate.
TS27: amygdala Present 1L
TS27: cerebral cortex Present 1L
TS27: corpus striatum Present 1L
TS27: hippocampus Present 1L
TS27: main olfactory bulb Present 1L
TS27: pallidum Present 1L
TS27: thalamus Present 1L
TS27: diencephalon Present Regionally restricted 1L Expression is in the mammillary region and is absent in the tegmental area.
TS27: mammillary body Present Regionally restricted 1L Expression is in the mammillary region and is absent in the tegmental area.
TS27: hypothalamus Absent 1L
Specimen 1M: postnatal day 0 (more )
Structure Level Pattern Image Note
TS27: inferior colliculus Present 1M
TS27: superior colliculus Present 1M
TS27: substantia nigra Present Patchy 1M
Specimen 1N: postnatal day 0 (more )
Structure Level Pattern Image Note
TS27: hindbrain Present Regionally restricted 1N Expression is in the lemniscal nuclei, the sensory columns (cochlear, vestibular, trigeminal, and solitary tract), and is absent in the motor nuclei.
TS27: cerebellar cortex Present 1N
TS27: deep cerebellar nucleus Present 1N
TS27: gigantocellular reticular nucleus Present 1N
TS27: pontine nucleus Present 1N
TS27: superior olivary nucleus Present 1N
Specimen 1R: postnatal day 9 (more )
Structure Level Pattern Image Note
TS28: brain Strong 1R
Specimen 2A: postnatal day 9 (more )
Structure Level Pattern Image Note
TS28: cerebellar cortex Present 2A
Specimen 2C: postnatal day 9 (more )
Structure Level Pattern Image Note
TS28: inferior colliculus Present 2C
Specimen 2E: postnatal day 9 (more )
Structure Level Pattern Image Note
TS28: midbrain Present Regionally restricted 2E
Specimen 2G: postnatal day 10 (more )
Structure Level Pattern Image Note
TS28: hippocampus Present 2G
Specimen 4A: postnatal month 4 (more )
Structure Level Pattern Image Note
TS28: forebrain Present Regionally restricted 4A Expression is in alar structures.
Specimen 4B: postnatal month 4 (more )
Structure Level Pattern Image Note
TS28: forebrain Present Regionally restricted 4B Expression is in alar structures.
Specimen 4C: postnatal month 4 (more )
Structure Level Pattern Image Note
TS28: cortical layer II Present 4C
TS28: cortical layer III Present 4C
TS28: cortical layer V Present 4C
TS28: cortical layer VI Present 4C
TS28: cortical layer I Absent 4C
TS28: cortical layer IV Absent 4C
Specimen 4D: postnatal month 4 (more )
Structure Level Pattern Image Note
TS28: cortical layer II Present 4D
TS28: cortical layer III Present 4D
TS28: cortical layer V Present 4D
TS28: cortical layer VI Present 4D
TS28: cortical layer I Absent 4D
TS28: cortical layer IV Absent 4D
Specimen 4E: postnatal month 4 (more )
Structure Level Pattern Image Note
TS28: brain Present 4E
Specimen 4F: postnatal month 4 (more )
Structure Level Pattern Image Note
TS28: brain Present 4F
Specimen 4G: postnatal month 4 (more )
Structure Level Pattern Image Note
TS28: brain Present 4G
Specimen 4H: postnatal month 4 (more )
Structure Level Pattern Image Note
TS28: brain Present 4H
Specimen 4I: postnatal month 4 (more )
Structure Level Pattern Image Note
TS28: cerebral cortex Present Single cells 4I
Specimen 4J: postnatal month 4 (more )
Structure Level Pattern Image Note
TS28: corpus striatum Present Single cells 4J
Specimen 4K: postnatal month 4 (more )
Structure Level Pattern Image Note
TS28: pallidum Present 4K
Specimen 4L: postnatal month 4 (more )
Structure Level Pattern Image Note
TS28: gigantocellular reticular nucleus Present 4L
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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