| Antibodies |
| Purified Mouse IgG2a K isotype |
BD PharMingen |
Cat# 550339; RRID: AB_393619 |
| Mouse anti-Tau (TAU-5) |
Thermo Fisher Scientific |
Cat# MA5–12808; RRID: AB_10980631 |
| Rabbit anti-Tau (Tau-E178) |
Abcam |
Cat# ab32057; RRID: AB_778254 |
| Rabbit anti-Tau |
Dako |
Cat# A0024; RRID: RRID:AB_10013724 |
| Rabbit anti-Tau[p214] |
Invitrogen |
Cat# 44–742G; RRID: AB_1502105 |
| Mouse anti-Sm (clone Y12) |
Thermo Fisher Scientific |
Cat# MA5–13449; RRID: AB_10944191 |
| Mouse anti-SNF |
Lab: Dr. Helen K. Salz |
N/A |
| Rabbit anti-SNRPD2 |
Novus Biologicals |
Cat# NBP1–87028; RRID: AB_11005028 |
| Rabbit anti-U1–70K |
Lab: Dr. Nicholas Seyfried |
N/A |
| Rabbit anti-GFP |
Invitrogen |
Cat# A-11122; RRID: AB_221569 |
| Rabbit anti-GAPDH |
GeneTex |
Cat# 100118; RRID: AB_10723203 |
| Mouse anti-Actin (clone C4) |
Millipore |
Cat# MAB1501; RRID: AB_2223041 |
| Alexa Fluor 680 Goat anti-Mouse IgG (H+L) |
Thermo Fisher Scientific |
Cat# A-21058; RRID: AB_2535724 |
| Alexa Fluor 680 Goat anti-Rabbit IgG (H+L) |
Thermo Fisher Scientific |
Cat# A-21109; RRID: AB_2535758 |
| Alexa Fluor 790 Donkey anti-Mouse IgG (H+L) |
Thermo Fisher Scientific |
Cat# A-11371; RRID: AB_2534144 |
| Alexa Fluor 790 Donkey anti-Rabbit IgG (H+L) |
Thermo Fisher Scientific |
Cat# A-11374; RRID: AB_2534145 |
| Cy3-conjugated Goat anti-mouse IgG |
Jackson ImmunoResearch |
Cat# 115–165–146; RRID: AB_2338690 |
| Alexa Fluor 488-conjugated goat anti-rabbit IgG |
Jackson ImmunoResearch |
Cat# 711–545–152; RRID: AB_2313584 |
| Mouse anti-b-galactosidase |
Promega |
Cat# Z3783; RRID: AB_430878 |
| Mouse anti-elav |
Developmental Studies Hybridoma Bank |
Cat# Elav-9F8A9; RRID: AB_528217 |
| Mouse anti-repo |
Developmental Studies Hybridoma Bank |
Cat# 8D12 anti-Repo; RRID: AB_528448 |
| Goat anti-mouse IgG-HRP |
Santa Cruz |
Cat# sc-2005; RRID: AB_631736 |
| Goat anti-rabbit IgG-HRP |
Santa Cruz |
Cat# sc-2004; RRID: AB_631746 |
| Chemicals, Peptides, and Recombinant Proteins |
| Protein A-Sepharose conjugated beads |
Invitrogen |
Cat# 101041 |
| DynaBeads Protein G |
Invitrogen |
Cat# 1003D |
| Lysyl endopeptidase (lys-C) |
Wako |
Cat# 125–05061 |
| Trypsin |
Promega |
Cat# v5111 |
| Peptide calibration mixture |
Thermo Fisher Scientific |
Cat# 88321 |
| Protease inhibitor cocktail |
Gendepot |
Cat# P3100–001 |
| DAB peroxidase substrate |
Vector Laboratories |
Cat# SK-4100 |
| 8% glutaraldehyde |
Electron Microscopy Sciences |
Cat# 16020 |
| Trizol |
Invitrogen |
Cat# 15596–026 |
| DNaseI |
Promega |
Cat# M6101 |
| 2X Laemmli Sample Buffer |
Biorad |
Cat# 161–0737 |
| ECL |
PerkinElmer |
Cat# 121001EA |
| Vectashield mounting medium |
Vector Laboratories |
Cat# H-1000 |
| Vectashield DAPI-containing mounting medium |
Vector Laboratories |
Cat# H-1200 |
| Critical Commercial Assays |
| Click-iT Plus TUNEL Assay |
Invitrogen |
Cat# C10617
|
| RNeasy Micro Kit |
QIAGEN |
Cat# 74104 |
| SuperScript III First-Strand Synthesis System |
Invitrogen |
Cat# 18080–051 |
| iQ SYBR Green Supermix |
Biorad |
Cat# 170–8882 |
| ABC Kit |
Vector Laboratories |
Cat# PK-6200 |
| Deposited Data |
|
Drosophila RNA-seq data |
AMP-AD Knowledge Portal |
ID# syn7274101 |
| https://doi.org/10.7303/syn2580853 |
https://doi.org/10.7303/syn7274101 |
| ROSMAP human brain RNA-seq data |
AMP-AD Knowledge Portal |
ID# syn3388564 |
| https://doi.org/10.7303/syn2580853 |
https://doi.org/10.7303/syn3388564 |
| Experimental Models: Fly Lines |
| ChAT-GAL4 |
Bloomington Drosophila Stock Center |
BDSC_6798 |
| dpp-GAL4 |
Lab: Dr. Hugo J. Bellen |
N/A |
| repo-GAL4 |
Lab: Dr. Hugo J. Bellen |
N/A |
| Rh1-GAL4 |
Lab: Dr. Hugo J. Bellen |
N/A |
| elavC155-GAL4 |
Bloomington Drosophila Stock Center |
BDSC_458 |
| GMR-GAL4 |
Lab: Dr. Juan Botas |
N/A |
| UAS-TauWT |
Lab: Dr. Mel B. Feany |
N/A |
| UAS-TauV337M |
Lab: Dr. Mel B. Feany |
N/A |
| UAS-TauR406W/TM3 |
Lab: Dr. Mel B. Feany |
N/A |
| UAS-lacZ |
Lab: Dr. Hugo J. Bellen |
N/A |
| SmBBG/CyO |
Bloomington Drosophila Stock Center |
BDSC_13130 |
| SmBMI/CyO |
Bloomington Drosophila Stock Center |
BDSC_43739 |
| SmBSH/CyO |
Kyoto Stock Center |
KSC_122076 |
| Df(2L)BSC453 |
Bloomington Drosophila Stock Center |
BDSC_24957 |
| SmBGR |
GenetiVision |
Stock ID# P7-D6 |
| w1118; SmBMG/CyO; SmBGR/TM6B |
This paper |
N/A |
| snRNP-U1–70K2/CyO |
Lab: Dr. Helen K. Salz |
N/A |
| snf210/FM7 |
Lab: Dr. Helen K. Salz |
N/A |
| repo-GAL4, tub-GAL80TS, UAS-TauWT/TM3 |
Lab: Dr. Mel B. Feany |
N/A |
| yw; SmBMG/CyO |
This paper |
N/A |
| w1118; SmBMG/CyO |
This paper |
N/A |
| UAS-SmB |
This paper |
N/A |
| Oligonucleotides |
| Primers for PCR-detection of spliceosome mRNAs and validation of splicing errors are listed in Data S1, tab xi |
This paper |
N/A |
| Software and Algorithms |
| MaxQuant |
Cox et al., 2014 |
https://www.biochem.mpg.de/5111795/maxquant; RRID: SCR_014485 |
| Leica Application Suite X |
Leica |
https://www.leica-microsystems.com/products/microscope-software/details/product/leica-las-x-ls/; RRID: SCR_013673 |
| ImageJ |
National Institute of Health |
https://imagej.nih.gov/ij/; RRID: SCR_003073 |
| LabChart Reader |
ADInstruments |
https://www.adinstruments.com/products/labchart-reader; RRID: N/A |
| Picard |
Broad Institute |
https://broadinstitute.github.io/picard/; RRID: SCR_006525 |
| FastQC v0.10.1 |
Andrews, 2010 |
http://www.bioinformatics.babraham.ac.uk/projects/fastqc/; RRID: SCR_014583 |
| STAR 2.5.3a |
Dobin et al., 2013 |
https://github.com/alexdobin/STAR; RRID: SCR_015899 |
| rMATS |
Shen et al., 2014 |
http://rnaseq-mats.sourceforge.net/; RRID: SCR_013049 |
| DESeq2 |
Love et al., 2014 |
https://bioconductor.org/packages/release/bioc/html/DESeq2.html; RRID: SCR_015687 |
| MaxEntScan |
Yeo and Burge, 2004 |
https://genes.mit.edu/burgelab/maxent/Xmaxentscan_scoreseq.html; RRID: SCR_016707 |
| DeepTools |
Ramírez et al., 2014 |
https://deeptools.readthedocs.io/en/develop/; RRID: SCR_016366 |
| Bwtool |
Pohl and Beato, 2014 |
http://cromatina.crg.eu/bwtool; RRID: SCR_003035 |
| DEIn |
This paper |
https://www.liuzlab.org/Scripts_DEIn.zip |
| CrypSplice |
This paper |
https://www.liuzlab.org/Scripts_Tau-SmB.zip |
| CrypticLoad |
This paper |
https://ww.liuzlab.org/Scripts_CrypticLoad.zip |
| DAVID v6.8 |
Huang da et al., 2009b |
https://david.abcc.ncifcrf.gov/; RRID: SCR_001881 |
| WebGestalt |
Zhang et al., 2005 |
http://www.webgestalt.org/option.php; RRID:SCR_006786 |
| Other |
| Orbitrap Fusion Tribrid Mass Spectrometer |
Thermo Fisher Scientific |
N/A |
| CFX96 Touch Real-Time PCR Detection System |
Biorad |
N/A |
| Leica SP8 confocal microscope |
Leica |
N/A |
| Leica EC3 system |
Leica |
N/A |
| Leica DM 6000 B system |
Leica |
N/A |
