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View data detailing transgene expression in Cre and other driver lines. Data include experiments using colorimetric in situ hybridization (CISH), double fluorescent in situ hybridization (DFISH) and other histological methods.

Driver lines

Line Name Example Image Expression Pattern Summary
A930038C07Rik-Tg1-Cre Widespread, scattered expression of reporter gene throughout the brain. Enriched in restricted populations within the olfactory areas, piriform cortex, hippocampus, and cerebellum. Adult Cre expression observed in restricted populations of striatum, layer 5 neocortex, hypothalamus, pons and medulla. This is different from the A930038C07Rik gene itself which is specifically expressed in layer 1.
A930038C07Rik-Tg4-Cre Scattered populations within cortical layers 4 and 5, septum, thalamus, and midbrain. In the cortex, unlike A930038C07Rik which is specifically expressed in layer 1, Cre-directed reporter expression is found enriched in a scattered population of cells in layer 5.
Agrp-IRES-Cre Enriched in the arcuate nucleus of the hypothalamus.
Calb2-IRES-Cre Widespread, scattered expression throughout the brain. Enriched in restricted populations within the olfactory areas, layer 2/3 and 4 of neocortex, cortical subplate (amygdala), hypothalamus, thalamus, hippocampus, pons, medulla, and cerebellum.
Camk2a-Cre Throughout the cortex, hippocampus, striatum, and other structures.
Camk2a-CreERT2 Sparse populations of neurons in the cortex, hippocampus, striatum, and other structures in the absence of tamoxifen. After tamoxifen administration, reporter gene expression is turned on in widespread populations of neurons in the same regions listed above.
Cart-Tg1-Cre Cre-directed reporter expression is found in scattered populations within the cortex (enriched in a population of cells in cortical layer 3), hippocampus, thalamus and cerebellum. Cre also expressed in restricted and/or sparse populations within the hypothalamus and midbrain.
Cck-IRES-Cre Widespread expression in cortex, hippocampus and thalamus. Sparse scattered elsewhere in the brain. Strong expression in Purkinje cell layer in cerebellum. Enriched in restricted populations in pons and medulla.
Cdhr1-Cre Enriched in the mitral and tufted cell layer within the olfactory bulb
Chat-IRES-Cre Expressed in cholinergic neurons - restricted populations within the medulla, pons, thalamus, and midbrain; and in scattered cells within the striatum, basal forebrain, and a very sparse population of cells in the cortex.
Chat-IRES-CreER Expressed in very sparse, restricted populations within the pallidum (basal forebrain; medial septal nuclei) and hypothalamus
Cort-T2A-Cre Scattered expression throughout the brain, especially cortex and enriched in olfactory bulb.
Crh-IRES-Cre (BL) Enriched in restricted populations within the medulla, pons, hypothalamus, and thalamus. Scattered and restricted expression in neocortex.
Crh-IRES-Cre (ZJH) Scattered expression in cortex. Enriched expression in piriform cortex, amygdala, and thalamus.
Ctgf-Tg1-Cre Cre expression is enriched in cortical layer 6 and restricted populations within the cortical subplate, although reporter expression is widespread.
Ctgf-Tg2-Cre Cortex and hippocampus. Cre expression is enriched in layer 6b, though reporter expression is widespread, and in restricted populations within the cortical subplate and hypothalamus.
Cux2-Cre Strong widespread expression throughout the brain. Expressed in restricted populations in the hippocampus.
Cux2-CreERT2 Widespread expression in thalamus, midbrain, pons, medulla and cerebellum. Enriched in cortical layer 2/3. Scattered expression in hippocampus, striatum and deep cortical layers (layers 4, 5 and 6).
Cux2-IRES-Cre Strong expression in superficial cortical layers, expressed in restricted populations in the hippocampus, olfactory bulb, cerebellum and midbrain. More widespread expression in pons and medulla.
Cyp39a1-Tg1-Cre Scattered expression throughought the brain. Enriched in restricted populations within the hippocampus, cerebellum, pallidum, and olfactory areas.
Cyp39a1-Tg7-Cre Cortex, hippocampus and cerebellum. In the cortex reporter expression is enriched in superficial layers 2/3. Cre expression is scattered throughout the brain and in restricted populations within the medulla and pons.
Dbh-Cre Expression in restricted populations within the pons.
Dbx1-IRES-Cre Scattered expression throughout brain. Enriched in piriform cortex, cortical subplate, midbrain, pons, and medulla; and in restricted populations within the thalamus, hypothalamus, and cerebellum.
Dcx-Cre-35 Widespread expression throughout the brain.
Dcx-Cre-38 Widespread, scattered expression throughout the brain.
Dcx-CreERT2 Widespread expression throughout the brain. Expressed in restricted populations in striatum, hippocampus, anterior olfactory nucleus, and cortex. Strong expression in the lateral ventricle.
Dlx5-CreERT2 Widespread, scattered expression throughout cortex, striatum, amygdala, and hippocampus. Widespread expression in olfactory bulb, hypothalamus, and pallidum.
Drd1a-Cre Reporter expression is throughout the cortex, hippocampus, striatum, and other structures. Cre expression is enriched in piriform cortex and striatum; and in restricted populations within the medulla, pons, and cerebellum.
Drd2-Cre Scattered expression throughout brain. Enriched in striatum, restricted populations within cerebellum, cortex, thalamus, medulla, and olfactory areas.
Emx1-IRES-Cre Specific to the cortex and hippocampus.
Eno2-Cre Widespread, scattered expression throughout the brain.
Erbb4-2A-CreERT2 Scattered populations in cortex, hippocampus, and throughout the brain.
Et(cre/ERT2)119Rdav Very sparse scattered expression.
Et(cre/ERT2)1382Rdav Enriched in cortical subplate (amygdala) and sparse expression within restricted populations of pallidum and thalamus.
Et(cre/ERT2)13866Rdav Strong expression in the amygdala. Expressed in restricted populations in thalamus, midbrain, and hypothalamus.
Et(cre/ERT2)1642Rdav Enriched in restricted, sparse cells within pons
Et(cre/ERT2)1957Rdav Widespread, sparse scattered expression throughout brain. Enriched in restricted populations within hippocampus and piriform cortex
Et(cre/ERT2)2007Rdav Widespread, scattered expression throughout the brain. Enriched in deep layers of neocortex and piriform cortex, and in restricted populations within hippocampus.
Et(cre/ERT2)21Rdav Expression in restricted populations within the medulla
Et(cre/ERT2)278Rdav Scattered expression within midbrain areas.
Et(cre/ERT2)296Rdav Sparse expression throughout the brain, with a patchy pattern in cortex.
Et(cre/ERT2)398Rdav Sparse, scattered expression in cortex, hippocampus, and cortical subplate (amygdala). Enriched in deep layers of cortex.
Et(cre/ERT2)4Rdav No expression.
Et(cre/ERT2)6691Rdav Widespread, scattered expression throughout brain. Enriched in neocortical layer 6 and in restricted populations within hippocampus.
Et(cre/ERT2)6959Rdav Widespread, scattered expression throughout brain. Enriched in piriform cortex, restricted populations within hippocampus, and in layers 4 and 6 of cortex.
Et(cre/ERT2)7089Rdav Widespread expression throughout the brain.
Et(cre/ERT2)7149Rdav Enriched in scattered cells of piriform cortex, hippocampus, thalamus, and midbrain.
Et(cre/ERT2)8120Rdav Widespread, scattered expression throughout brain. Enriched within piriform cortex and restricted populations of hippocampus.
Et(cre/ERT2)8131Rdav Widespread, sparse expression throughout brain.
Et(cre/ERT2)837Rdav No expression.
Et(cre/ERT2)9699Rdav Widespread expression throughout the brain.
Et(EGFP/cre)16053Rdav Strong widespread expression throughout the brain. Expressed in restricted populations in the hippocampus, striatum, olfactory bulb, and thalamus.
Et(EGFP/cre)16055Rdav Widespread expression in amygdala, cortex and midbrain. Sparse, scattered expression in striatum, thalamus, and cerebellum. Enriched in restricted populations in hippocampus.
Et(EGFP/cre)16102Rdav Widespread expression throughout the brain. Scattered expression in striatum.
Et(EGFP/cre)16218Rdav Widespread expression in cortex, hippocampus, striatum, pallidum, hypothalamus, and olfactory bulb. Sparse, strong scattered cells in thalamus, midbrain and cerebellum. Widespread in pons and medulla.
Et(EGFP/cre)16250Rdav Widespread expression throughout the brain.
Et(EGFP/cre)16255Rdav Strong widespread expression throughout the brain.
Et(EGFP/cre)16261Rdav Widespread, sparse expression throughout brain. Enriched in cortical layer 6 and in restricted populations within hippocampus.
Et(icre)1402Rdav Widespread expression throughout brain.
Et(icre)1470Rdav Widespread, sparsely scattered expression throughout brain
Et(icre)1555Rdav Widespread, scattered expression throughout brain, with a patchy pattern in cortex.
Et(icre)21614Rdav Strong expression in various regions throughout the brain including the amygdala, CA3 of the hippocampus, olfactory bulb, midbrain, pons, medulla, thalamus, hypothalamus, pallidum, and the piriform area. Expressed in scattered cells in the Purkinje cell layer of the cerebellum.
Et(icre)22787Rdav Low level scattered expression throughout the brain.
Et(icre)754Rdav Very sparse expression in restricted populations within hippocampus and cortical subplate.
Et(icre/ERT2)10596Rdav Sparse, scattered expression throughout the brain. Enriched within restricted populations in pons and medulla.
Et(icre/ERT2)10727Rdav Strong widespread expression throughout the brain.
Etv1-CreERT2 Sparse, scattered expression throughout many areas of the brain. Enriched in neocortical layer 5, and restricted populations within the cerebellum, thalamus, hippocampus, piriform cortex, and cortical subplate (amygdala)
Gabra6-IRES-Cre Cre is enriched in granular cell layer of the cerebellum. Reporter expression is also seen in scattered cells, yet widespread throughout most brain areas.
Gad2-IRES-Cre Widespread, scattered expression throughout brain. Enriched in the striatum, piriform cortex, and within restricted populations in the thalamus, hypothalamus, cerebellum, and olfactory areas, and GABAergic interneurons of the cortex.
GadGFP Very sparse expression throughout brain. Enriched in restricted populations within medulla.
Gal-Cre Expressed in specific restricted populations with the medulla, pons, thalamus, and hypothalamus.
Gfap-Cre Reporter expression is throughout the cortex, hippocampus, cerebellum, striatum, and other regions in both neurons and glia. Cre expression is more scattered throughout the brain and in restricted populations within cerebellum.
Gng7-Cre Widespread, scattered expression throughout brain. Enriched in striatum and neocortical layers 2 and 5, and in restricted populations within the medulla, pons, midbrain, hippocampus, hypothalamus, thalamus, and olfactory areas.
Grik4-Cre Enriched in restricted populations within the hippocampus, cerebellum, cortical subplate (amygdala), medulla, pons, and thalamus.
Hdc-Cre Enriched in restricted populations of cells in the hypothalamus (tuberomammillary nucleus).
Kcnc2-Cre Widespread, scattered expression throughout the brain. Enriched in piriform cortex, thalamus, and in restricted populations within the hippocampus, hypothalamus, cerebellum, and pons
Kiss1-Cre Expression is enriched in specific nuclei of the hypothalamus (e.g. arcuate nucleus).
Lepr-IRES-Cre Expressed in restricted populations within the hypothalamus and in sparse scattered cells in hippocampus.
Lhx6-CreERT2 Sparse, scattered expression throughout brain. Enriched in restricted populations within the cortical subplate (amygdala), and pallidum
Mybpc1-Cre Widespread, scattered expression in most brain areas. Enriched expression of reporter gene within restricted populations of olfactory areas (piriform cortex), isocortex, hippocampal formation, cerebellum, cortical subplate, and thalamus.
Nefh-Cre Widespread expression throughout brain.
Nefl-IRES-CreER Scattered expression throughout brain. In P28 mice, reporter and Cre expression enriched in cortical layer 5; and in (different) restricted populations of hippocampal formation. Both reporter and Cre expression are also enriched in specific populations within the medulla and pons. Cre expression also enriched in areas of cortical subplate, midbrain, and cerebellum.
Nes-Cre Widespread expression throughout brain.
Nos1-CreERT2 Expressed in the molecular and granular layer in the cerebellum. Strong expression in the amygdala and olfactory bulb, particularly the accessory olfactory bulb, granular layer. Expressed in scattered cell populations in other brain regions.
Nr5a1-Cre Expressed in restricted populations within the hypothalamus (ventromedial hypothalamus), and in cortical layer 4.
Ntsr1-Cre Specific to cortical layer 6 neurons.
Otof-Cre Scattered, sparse, expression throughout brain. Enriched in neocortical layer 6 and cingulate cortex, also in restricted populations within hippocampus, cortical subplate (amygdala)
Otof-CreERT2 Low level scattered expression throughout the brain.
Oxt-IRES-Cre Expressed in restricted populations within the hypothalamus (paraventricular and supraoptic nuclei).
Pcp2-Cre (AM) Cre expression restricted to Purkinje cells in the cerebellum. Reporter expression also prominently in cerebellar Purkinje cells, and widely scattered throughout the brain (possibly glial cells) and enriched in the cortex and hippocampus.
Pcp2-Cre (NH) Expressed in Purkinje cells within the cerebellum.
Pdzk1ip1-Cre Reporter expression is in restricted populations within the thalamus, midbrain, pons, and medulla.
Pmch-Cre Enriched in restricted populations within the hypothalamus.
Pnmt-Cre Reporter expression is in restricted populations within the medulla, and enriched in layers 2/3, 5a and 6 of cortex as well as hippocampus.
Pomc-Cre (BL) Expressed in restricted populations within the medulla, hypothalamus, and hippocampus, and in sparse cells of the septum
Pomc-Cre (ST) Expression is enriched within restricted hypothalamic nuclei and within the dentate gyrus of the hippocampus.
Pvalb-2A-Cre Scattered in the cortex, hippocampus and other brain regions, resembling the Pvalb expression pattern. Additional reporter gene expression is in cortical layer 5 neurons, which are unlikely interneurons.
Pvalb-2A-tTA2 Scattered expression throughout cortex. Enriched in restricted populations in the cerebellum, medulla, pons, pallidum, and thalamus.
Pvalb-CreERT2 Very sparse, scattered expression. Enriched in restricted populations within the cerebellum.
Pvalb-IRES-Cre Expressed in restricted and/or sparse populations within the cerebellum, medulla, pons, midbrain, cortex, hippocampus, thalamus, and striatum.
Scnn1a-Tg1-Cre Scattered expression throughout cortex, striatum, hippocampus and cerebellum. In the cortex, reporter expression is enriched in layer 4.
Scnn1a-Tg2-Cre Reporter gene expressed in sparse and/or restricted regions of cortex, thalamus, midbrain, medulla, pons, and cerebellum. In the cortex reporter expression is restricted to a sparse population of layer 4 neurons.
Scnn1a-Tg3-Cre Cre and reporter gene expression enriched in cortical layer 4. Reporter expression also enriched in restricted populations within cortex, thalamus, and in cerebellum.
Sim1-Cre Scattered expression throughout brain. Enriched in restricted populations within the cerebellum, midbrain, hypothalamus, hippocampus (CA1), cortical subplate (amygdala), thalamus, and area-dependent enrichment in layers 2/3, 4, and 6b of cortex.
Six3-Cre Enriched in cortical layer 4 and the striatum. In scattered cells in the cortex and throughout the brain.
Slc17a6-IRES-Cre Widespread expression throughout most of the brain, except very sparse expression in the striatum and restricted populations within cerebellum, medulla, and pons.
Slc17a8-iCre Scattered expression throughout brain.
Slc32a1-IRES-Cre Widespread, scattered expression throughout most of the brain. Enriched in the striatum; and in restricted populations within the thalamus, hypothalamus, cerebellum, and olfactory areas, and GABAergic interneurons of the cortex.
Slc6a3-Cre Relatively specific to dopaminergic neurons in midbrain, hypothalamus and olfactory bulb. Scattered populations of reporter positive cells in basal forebrain, corticoamygdala area and brainstem.
Slc6a4-Cre Both Cre and reporter expression are observed in restricted populations (serotonergic neurons) within the medulla, pons, and midbrain. Additional reporter expression was noted in thalamus.
Slc6a4-CreERT2 Both Cre and reporter expression are observed in restricted populations (serotonergic neurons) within the medulla, pons, and midbrain. Additional reporter expression was noted in sparse cells of the hypothalamus.
Slc6a5-Cre Enriched in populations within the medulla and pons, and in a very restricted area of thalamus.
Sst-Cre Reporter expression in sparse, scattered cells throughout most of the brain.
Sst-CreERT2 Very sparse, scattered expression.
Syn1-Cre Widespread expression throughout brain. Relatively sparser expression in the striatum/pallidum. Enriched in cortex, particularly layer 4.
Syt6-Cre Sparse, scattered expression in brain areas including the medulla, pons, and midbrain. Enriched in specific areas within thalamus, layer 6a cortex, and olfactory areas.
Th-IRES-CreER Expressed in restricted populations or very sparsely within the medulla, pons and midbrain, and hypothalamus.
Thy1-YFPH Enriched in cortical layer 5 and hippocampus. Restricted or sparse populations within the cortical subplate (amygdala), cerebellum, pons, and medulla.
Trib2-2A-CreERT2 Widespread, scattered expression throughout the brain. Enriched in superficial layer 5 neurons of cortex. Also widespread in vasculature.
Ucn3-Cre Sparse, scattered expression of reporter gene throughout brain. Enriched in restricted and/or sparse populations within the cerebellum, medulla, pons, midbrain, hypothalamus, thalamus, cortical subplate (amygdala), and striatum.
Vamp2-IRES-CreER Widespread expression throughout the brain.
Wfs1-Tg2-CreERT2 Widespread, scattered expression throughout the brain. Enriched in restricted populations within piriform cortex, hippocampal formation, cerebellum, pallidum, and olfactory areas. Reporter expression is highly expressed in superficial layer neurons of the cortex.
Wfs1-Tg3-CreERT2 Scattered expression throughout the brain. Enriched in the piriform cortex and layer 2/3 of cortex; and in restricted populations within the hippocampus, striatum, thalamus, cerebellum, and olfactory areas.
Wnt3a-IRES-Cre Enriched in the thalamus and midbrain; and in restricted populations within the hippocampus, pons, and cerebellum.

Reporter lines

Line Name Expression Summary
Ai14 tdTomato fluorescent protein is expressed in cytoplasm
Ai2 EYFP fluorescent protein is expressed in cytoplasm
Ai27 Mammalianized channelrhodopsin mutant ChR2(H134R) fused to tdTomato fluorescent protein is expressed primarily along the cell membrane.
Ai3 EYFP fluorescent protein is expressed in cytoplasm
Ai31 Emerald fluorescent protein fused to the mouse synaptophysin gene (amino acids 7-314) is expressed in synaptic terminal areas.
Ai32 Channelrhodopsin mutant (H134R) fused to EYFP fluorescent protein is expressed primarily along the cell membrane.
Ai34 tdTomato fluorescent protein fused to the mouse synaptophysin gene (amino acids 7-314) is expressed in synaptic terminal areas.
Ai35 Light-activated proton pump Arch, isolated from Halorubrum sodomense, fused to EGFP fluorescent protein and ER-exporting signal is expressed primarily along the cell membrane.
Ai38 Calcium indicator GCaMP3 respond to increase of intracellular calcium level upon neuronal activation.
Ai39 eNpHR3.0, halorhodopsin optimized for mammalian expression fused to EGFP fluorescent protein is expressed primarily along the cell membrane.
Ai6 ZsGreen fluorescent protein is expressed in cytoplasm
Ai9 tdTomato fluorescent protein is expressed in cytoplasm
R26-stop-EYFP EYFP fluorescent protein is expressed in cytoplasm.