Skip to main content
brain-map.orgBrowseExperimentExploreAnalyzeReferenceDevelop
Search
Search
brain-map.orgBrowseExperimentExploreAnalyzeReferenceDevelopLogin

Transgenic Mouse Lines

Driver lines enable access to genetically-identified cell classes and can be used in combination with reporter lines to visualize or modify diverse populations of cells. This suite of molecular tools is used in our research and lines are made available to the community via The Jackson Laboratory.

Access the latest transgenic mouse lines in the Genetic Tools Atlas.

A selection of transgenic lines generated at the Alen Institute in 2018 and earlier are described below.

Characterization data legend: A full list of abbreviations is available at the bottom of this page. Phenotypic characterization of selected lines can be accessed below, by clicking on the colored circle corresponding to a mouse line and an experimental data modality code:

  • Histology (purple): Gene expression data by in situ hybridization (ISH)
  • Neuronal connectivity (green): Projectional maps
  • In vivo expression (gold): In vivo whole-brain expression
Genetic Tools Atlas
Access the latest transgenic mouse lines in the Brain Knowledge Platform's Genetic Tools Atlas.

Driver lines

Mouse line

Jax stock ID number

Target gene

Plasmid info

Reference

Characterization data

Adcyap1-F2A-Cre

30155

Adenylate cyclase activating polypeptide 1

‍

Harris et al., 2014

Histology
Connectivity maps

‍

Avp-IRES2-Cre

23530

Arginine Vasopressin

‍

Harris et al., 2014

Histology
Connectivity maps

‍

Calb1-IRES2-Cre

28532

Calbindin 1

‍

Daigle et al., 2018

Histology

Calb1-T2A-dgCre

23531

Calbindin 1

‍

Daigle et al., 2018

Histology
Connectivity maps

‍

Camk2a-CreERT2

12362

CaM Kinase II Alpha Subunit

‍

Madisen et al., 2010

Histology

Cart-IRES2-Cre

28533

CART Prepropeptide

‍

Daigle et al., 2018

Histology
Connectivity maps

‍

Cart-Tg1-Cre

9615

CART Prepropeptide

‍

Harris et al., 2014

Histology
Connectivity maps

‍

Ctgf-T2A-dgCre

28535

Connective Tissue Growth Factor

‍

Tasic et al., 2016

Histology
Connectivity maps

‍

Erbb4-F2A-CreERT2

12360

Erb-B2 Receptor Tyrosine Kinase 4

‍

Madisen et al., 2010

Histology
Connectivity maps

‍

Esr2-IRES2-Cre

30158

Estrogen Receptor 2

‍

Daigle et al., 2018

Histology
Connectivity maps

‍

Fezf1-T2A-dCre

25110

FEZ Family Zinc Finger 1

‍

Daigle et al., 2018

Histology
Connectivity maps

‍

Gnb4-IRES2-Cre

29587

G Protein Subunit Beta 4

‍

Wang et al., 2017

Histology
Connectivity maps

‍

Gnb4-IRES2-CreERT2

30159

G Protein Subunit Beta 4

‍

Daigle et al., 2018

Histology
Connectivity maps

‍

Htr1a-IRES2-Cre

30160

5-Hydroxytryptamine Receptor 1A

‍

Daigle et al., 2018

Histology
Connectivity maps

‍

Ndnf-IRES2-dgCre

28536

Neuron Derived Neurotrophic Factor

‍

Tasic et al., 2016

Histology
Connectivity maps

‍

Npr3-IRES2-Cre

31333

Natriuretic Peptide Receptor 3

‍

Daigle et al., 2018

Histology
Connectivity maps

‍

Npy-IRES2-FlpO

30211

Neuropeptide Y

‍

Daigle et al., 2018

Histology

‍

‍

Nr4a2-SA-IRES-Dre

‍

Nuclear Receptor Subfamily 4 Group A Member 2

‍

Madisen et al., 2015

Histology

‍

Ntng2-IRES2-Cre

29588

Netrin G2

‍

Wang et al., 2017

Histology
Connectivity maps

‍

Nxph4-T2A-CreERT2

22861

Neurexophilin 4

Addgene:62219

Harris et al., 2014

‍

Oxtr-T2A-Cre

31303

Oxytocin Receptor

‍

Daigle et al., 2018

Histology
Connectivity maps

‍

Pdyn-T2A-CreERT2

30197

Prodynorphin

‍

Daigle et al., 2018

Histology
Connectivity maps

‍

Penk-F2A-CreERT2

22862

Proenkephalin

‍

Harris et al., 2014

Histology
Connectivity maps

‍

Penk-IRES2-Cre-neo

25112

Proenkephalin

‍

Daigle et al., 2018

Histology
Connectivity maps

‍

Plxnd1-IRES2-dgFlpO

‍

Plexin D1

‍

Daigle et al., 2018

Histology

‍

Pvalb-T2A-Cre

12358

Parvalbumin

Addgene:61570

Madisen et al., 2010

Histology

‍

Pvalb-T2A-CreERT2

21189

Parvalbumin

‍

Harris et al., 2014

‍

Pvalb-T2A-dCre

22863

Parvalbumin

‍

Harris et al., 2014

Histology

‍

Pvalb-T2A-Dre

21190

Parvalbumin

Addgene:61571

Harris et al., 2014

Histology

‍

Pvalb-T2A-FlpE

21191

Parvalbumin

‍

Harris et al., 2014

‍

Pvalb-T2A-FlpO

22730

Parvalbumin

Addgene:61572

Harris et al., 2014

Histology

‍

Rasgrf2-T2A-dCre

22864

Ras Protein Specific Guanine Nucleotide Releasing Factor 2

Addgene:61573

Harris et al., 2014

Histology
Connectivity maps

‍

Rasgrf2-T2A-dgFlpO

‍

Ras Protein Specific Guanine Nucleotide Releasing Factor 2

‍

Daigle et al., 2018

Histology

‍

Rorb-IRES2-Cre

23526

RAR Related Orphan Receptor B

‍

Harris et al., 2014

Histology
Connectivity maps
In vivo reporter activity

‍

Rorb-IRES2-FlpO

29590

RAR Related Orphan Receptor B

‍

Daigle et al., 2018

Histology

Rorb-P2A-FlpO

‍

RAR Related Orphan Receptor B

‍

Daigle et al., 2018

Histology

Rorb-T2A-tTA2

28537

RAR Related Orphan Receptor B

‍

Harris et al., 2014

Histology

Scnn1a-Tg1-Cre

9111

Sodium Channel Epithelial 1 Alpha Subunit

‍

Madisen et al., 2010

Histology

Scnn1a-Tg2-Cre

9112

Sodium Channel Epithelial 1 Alpha Subunit

‍

Madisen et al., 2010

Histology
Connectivity maps

‍

Scnn1a-Tg3-Cre

9613

Sodium Channel Epithelial 1 Alpha Subunit

‍

Madisen et al., 2010

Histology
Connectivity maps
In vivo reporter activity

‍

Slc17a6-IRES2-FlpO

30212

Solute Carrier Family 17 Member 6

‍

Daigle et al., 2018

Histology

Slc17a7-IRES2-Cre

23527

Solute Carrier Family 17 Member 7

Addgene:61574

Harris et al., 2014

Histology
Connectivity maps
In vivo reporter activity

‍

Slc17a8-IRES2-Cre

28534

Solute Carrier Family 17 Member 8

‍

Daigle et al., 2018

Histology
Connectivity maps

‍

Slc32a1-IRES2-FlpO

31331

Solute Carrier Family 32 Member 1

‍

Daigle et al., 2018

Histology

Slc32a1-T2A-FlpO

29591

Solute Carrier Family 32 Member 2

‍

Daigle et al., 2018

Histology

Snap25-IRES2-Cre

23525

Synaptosome Associated Protein 25

‍

Harris et al., 2014

Histology

Sst-Cre

‍

Somatostatin

‍

Harris et al., 2014

Histology
Connectivity maps

‍

Tac1-IRES2-Cre

21877

Tachykinin Precursor 1

‍

Harris et al., 2014

Histology
Connectivity maps

‍

Tac2-IRES2-Cre

21878

Tachykinin Precursor 2

‍

Harris et al., 2014

Histology
Connectivity maps

‍

Tacr1-T2A-Cre

‍

Tachykinin Receptor 1

‍

Daigle et al., 2018

Histology
Connectivity maps

‍

Tnnt1-IRES2-CreERT2

‍

Troponin T1, Slow Skeletal Type

‍

Daigle et al., 2018

Trib2-F2A-CreERT2

22865

Tribbles Pseudokinase 2

‍

Harris et al., 2014

Histology
Connectivity maps

‍

Vipr2-IRES2-Cre

31332

Vasoactive Intestinal Peptide Receptor 2

‍

Daigle et al., 2018

Histology
Connectivity maps

‍

Wfs1-Tg2-CreERT2

9614

Wolframin ER Transmembrane Glycoprotein

‍

Madisen et al., 2010

Histology
Connectivity maps

‍

Wfs1-Tg3-CreERT2

9103

Wolframin ER Transmembrane Glycoprotein

‍

Madisen et al., 2010

Histology
Connectivity maps

‍

Reporter lines

Mouse line

Jax stock ID number

Knock-in locus

Plasmid info

Reference

Characterization

Ai2(RCL-EYFP)

7920

ROSA26

Addgene:22796

Madisen et al., 2010

Histology

Ai3(RCL-EYFP)

7903

ROSA26

Addgene:22797

Madisen et al., 2010

Histology

Ai6(RCL-ZsGreen)

7906

ROSA26

Addgene:22798

Madisen et al., 2010

Histology

Ai9(RCL-tdT)

7909

ROSA26

Addgene:22799

Madisen et al., 2010

Histology

Ai14(RCL-tdT)

7914

ROSA26

‍

Madisen et al., 2010

Histology

Ai27(RCL-ChR2H134R-tdT)

12567

ROSA26

Addgene:34630

Madisen et al., 2010

Histology

Ai31(RCL-Syp-EmGFP)

‍

ROSA26

‍

Daigle et al., 2018

Histology

Ai32(RCL-ChR2H134R-EYFP)

12569

ROSA26

Addgene:34880

Madisen et al., 2010

Histology

Ai34(RCL-Syp-tdT)

12570

ROSA26

Addgene:34881

Abraira et al., 2017

Histology

Ai35(RCL-Arch-EGFP-ER2)

12735

ROSA26

Addgene:34882

Madisen et al., 2012

Histology

Ai38(RCL-GCaMP3)

14538

ROSA26

Addgene:34883

Zariwala et al., 2012

Histology

Ai39(RCL-eNpHR3.0-EYFP)

14539

ROSA26

Addgene:34884

Madisen et al., 2012

Histology

Ai40(RCL-ArchT-EGFP)

21188

ROSA26

‍

Daigle et al., 2018

Histology

Ai47(RCL-triGFP)

‍

ROSA26

‍

Daigle et al., 2018

Histology

Snap25-LSL-F2A-GFP

21879

Snap25

Addgene:61575

Madisen et al., 2015

Histology

Ai57(RCFL-Jaws)

‍

ROSA26

‍

Madisen et al., 2015

Histology

Ai62(TITL-tdT)

22731

TIGRE

Addgene:61576

Madisen et al., 2015

Histology

Ai63(TI-TRE-tdT)

‍

TIGRE

‍

Daigle et al., 2018

Histology

Ai65(RCFL-tdT)

21875

ROSA26

Addgene:61577

Madisen et al., 2015

Histology

Ai66(RCRL-tdT)

21876

ROSA26

Addgene:61578

Madisen et al., 2015

Histology

Ai72(RCL-VSFPB)

‍

ROSA26

‍

Madisen et al., 2015

‍

Ai75(RCL-nT)

25106

ROSA26

‍

Daigle et al., 2018

Histology
Connectivity maps

‍

Ai78(TITL-VSFPB)

23528

TIGRE

‍

Madisen et al., 2015

Histology

Ai79(TITL-Jaws)

23529

TIGRE

‍

Madisen et al., 2015

Histology

Ai80(RCFL-CatCh)

25109

ROSA26

‍

Daigle et al., 2018

‍

Ai82(TITL-GFP)

23532

TIGRE

‍

Madisen et al., 2015

Histology

Ai85(TITL-iGluSnFr)

26260

TIGRE

‍

Madisen et al., 2015

Histology

Ai86(TITL-ArcLight)

‍

TIGRE

‍

Daigle et al., 2018

Histology

Ai87(RCL-iGluSnFr)

‍

ROSA26

‍

Madisen et al., 2015

Histology

Ai90(TITL-Chronos)

24100

TIGRE

‍

Daigle et al., 2018

Histology

Ai92(TITL-YCX2.60)

26262

TIGRE

‍

Madisen et al., 2015

Histology

Ai93(TITL-GCaMP6f)

24103

TIGRE

‍

Madisen et al., 2015

Histology
In vivo reporter activity

‍

Ai94(TITL-GCaMP6s)

24104

TIGRE

‍

Madisen et al., 2015

Histology
In vivo reporter activity

Ai95(RCL-GCaMP6f)

24105

ROSA26

Addgene:61579

Madisen et al., 2015

Histology

Ai96(RCL-GCaMP6s)

24106

ROSA26

‍

Madisen et al., 2015

Histology

Snap25-T2A-GCaMP6s

25111

Snap25

‍

Madisen et al., 2015

Histology

Ai110(RCL-FnGF-nT)

‍

ROSA26

‍

Daigle et al., 2018

Histology

Ai133(TITL-ssAPEX2tm)

30213

TIGRE

‍

Daigle et al., 2018

‍

Ai134(TITL-ChR2-YFP)

31334

TIGRE

‍

Daigle et al., 2018

‍

Ai136(TITL-ReaChR-YFP)

30216

TIGRE

‍

Daigle et al., 2018

Histology

Ai139(TIT2L-GFP-ICL-TPT)

30219

TIGRE

‍

Daigle et al., 2018

‍

Ai140(TIT2L-GFP-ICL-tTA2)

30220

TIGRE

‍

Daigle et al., 2018

‍

TITL-RCaMP1.07

30217

TIGRE

‍

Bethge et al., 2017

‍

Ai148(TIT2L-GC6f-ICL-tTA2)

30328

TIGRE

‍

Daigle et al., 2018

Histology
In vivo reporter activity

‍

Ai161(TIT2L-GFP-ICR-tTA2)

31561

TIGRE

‍

Daigle et al., 2018

‍

Ai162(TIT2L-GC6s-ICL-tTA2)

31562

TIGRE

‍

Daigle et al., 2018

In vivo reporter activity

Ai163(TIT2L-GC6s-ICL-TPT)

‍

TIGRE

‍

Daigle et al., 2018

‍

Ai167(TIT2L-ChrimsonR-tdT-ICL-tTA2)

‍

TIGRE

‍

Daigle et al., 2018

‍

Ai168(TIT2L-oChIEF-P2A-tdT-ICL-tTA2)

‍

TIGRE

‍

Daigle et al., 2018

‍

Ai169(TIT2L-ASAP2s-ICL-tTA2)

31569

TIGRE

‍

Daigle et al., 2018

‍

Ai170(TIT2L-ASAP2s-Kv-ICL-tTA2)

31570

TIGRE

‍

Daigle et al., 2018

‍

Abbreviations

CL, Rosa26 – CAG promoter – LoxP-STOP-LoxP. RCFL, Rosa26 – CAG promoter – FRT-STOP-FRT – LoxP-STOP-LoxP. RCRL, Rosa26 – CAG promoter – Rox-STOP-Rox – LoxP-STOP-LoxP. RCF, Rosa26 – CAG promoter – FRT-STOP-FRT. RCR, Rosa26 – CAG promoter – Rox-STOP-Rox. LSL, LoxP-STOP-LoxP. TITL, TIGRE – Insulators – TRE promoter – LoxP-STOP-LoxP. TIT, TIGRE – Insulators – TRE promoter. TIT2L, TIGRE – Insulators – TRE2 promoter – LoxP-STOP-LoxP. ICL, Insulators – CAG promoter – Lox2272-STOP2-Lox2272. ICR, Insulators – CAG promoter – Rox-STOP2-Rox. FnGF, FRT – nls-mNeonGreen – FRT. GC6f, GCaMP6f. GC6s, GCaMP6s. nT, nls-tdTomato. Syp, Synaptophysin. tdT, tdTomato. TPT, tdTomato-P2A-tTA2.