KEY RESOURCES TABLE
| REAGENT or RESOURCE | SOURCE | IDENTIFIER |
|---|---|---|
| Antibodies | ||
| HtzGFP19C8 (Mouse monoclonal anti-GFP) | Heiman et al. Nat Protocols. 2014 | N/A |
| HtzGFP19F7 (Mouse monoclonal anti-GFP) | Heiman et al. Nat Protocols. 2014 | N/A |
| Mouse monoclonal anti-GFP | Santa Cruz | Cat# sc-9996 RRID: AB_627695 |
| Rat anti-GFP | Nacalai Tesque | Cat# GF090R RRID: AB_2314545 |
| Rabbit anti-mRFP | ROCKLAND | Cat# 600–401-379 RRID: AB_2209751 |
| Rabbit anti-NeuN | Millipore | Cat# ABN78 RRID: AB_10807945 |
| Guinea pig anti-NeuN | Millipore | Cat# ABN90P RRID: AB_2341095 |
| Goat anti-NOVA2 | Santa Cruz | Cat# sc-10546 RRID: AB_2151558 |
| Rabbit anti-NOVA1 [EPR13847] | Abcam | Cat# ab183024 RRID: AB_2632587 |
| Human anti-pan NOVA | Yang et al. Proc Natl Acad Sci USA. 1998 | N/A |
| Rabbit anti-PTBP2 | Polydorides et al. Proc Natl Acad Sci USA. 2000 | N/A |
| Guinea pig anti-vGlut1 | Synaptic System | Cat# 135 304 RRID: AB_887878 |
| Rabbit anti-vGlut2 | Synaptic System | Cat# 135 403 RRID: AB_887883 |
| Mouse anti-VGAT | Synaptic System | Cat# 131 011 RRID: AB_887872 |
| Rabbit anti-Calbindin D-28K | Millipore | Cat# AB1778 RRID: AB_2068336 |
| Goat anti-Calbindin D28K | Santa Cruz | Cat# sc-7691 RRID: AB_634520 |
| Rabbit anti-ITPR1/InsP3R, type1 | Millipore | Cat# ABS55 RRID: AB_10807271 |
| Mouse anti-GAPDH | Santa Cruz | Cat# sc-32233 RRID: AB_627679 |
| Rabbit anti-Cux1/CDP (M-222) | Santa Cruz | Cat# sc-13024 RRID: AB_2261231 |
| Bacterial and Virus Strains | ||
| None | ||
| Biological Samples | ||
| None | ||
| Chemicals, Peptides, and Recombinant Proteins | ||
| None | ||
| Critical Commercial Assays | ||
| FD Rapid GolgiStain™ Kit | FD NeuroTechnologies, INC. | Cat# PK401A |
| Dynabeads mRNA Purification Kit | Ambion | Cat# 61006 |
| Ribo-Zero rRNA Removal Kit (Human/Mouse/Rat) | Illumina | Cat# MRZH116 |
| TruSeq RNA Sample Preparation Kit v2 | Illumina | Cat# RSS-122–2001 |
| Deposited Data | ||
| NOVA2 cTag-CLIP and PTBP2 CLIP | This Paper | GSE103316 |
| RNA-seq | This Paper | GSE103316 |
| See Table S3 for additional GEO/SRA datasets. | ||
| Experimental Models: Cell Lines | ||
| None | ||
| Experimental Models: Organisms/Strains | ||
| Nova2-cTag | This Paper | N/A |
| Nova2-cKO | This Paper | N/A |
| CMV-Cre | The Jackson Lab | Cat# 006054 |
| Emx1-Cre | The Jackson Lab | Cat# 005628 |
| Gad2-Cre | The Jackson Lab | Cat# 010802 |
| vGlut1-Cre/Slc17a7-Cre | The Jackson Lab | Cat# 023527 |
| Pcp2-Cre | The Jackson Lab | Cat# 004146 |
| tdTomato reporter | The Jackson Lab | Cat# 007914 |
| Nova2-KO | Saito et al., eLife 2016 | N/A |
| Ptbp2-KO | Licatalosi et al., Genes Dev. 2012 | N/A |
| Nova2/Ptbp2-dKO | This Paper | N/A |
| Oligonucleotides | ||
| See Table S1 for the list of primers. | ||
| Recombinant DNA | ||
| None | ||
| Software and Algorithms | ||
| CLIP Tool Kit (CTK) | Zhang lab (https://zhanglab.c2b2.columbia.edu/index.php/CTK_Documentation) | N/A |
| OLego | Zhang lab (https://zhanglab.c2b2.columbia.edu/index.php/OLego_Documentation) | N/A |
| Quantas | Zhang lab (https://zhanglab.c2b2.columbia.edu/index.php/Quantas_Documentation) | N/A |
| Kallisto 0.43.0 | Bray et al. Nat Biotechnology. 2016 | https://github.com/pachterlab/kallisto |
| Other | ||
| None | ||