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6 protocols using sc 35

1

Imaging Protein-Protein Interactions in Cells

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COIL (Cell Signaling Technology, D2L3J, #14168), FLAG-M2 (Sigma, F3165), PNN (Abcam, ab244250), RBM25 (Sigma, HPA070713-100UL), SC-35 (Santa Cruz Biotechnology, sc-53518), SC-35 (Sigma, S4045), SON (polyclonal rabbit, Sigma, HPA023535), SON (monoclonal mouse, Santa Cruz sc-398508), SRRM1 (Abcam, ab221061), SRRM2 (Thermo Fisher Scientific, PA5-66827).
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2

3D-SIM Imaging Immunodetection Protocol

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Antibodies used for immunodetection: primary antibodies against RNA Pol II Ser2P/Ser5P (rat monoclonal; kindly provided by D. Eick LMU Munich), H3K4me3 (rabbit polyclonal; Abcam, ab8580), H3K9me3 (mouse monoclonal; Active Motif, 39285), SC35 (mouse monoclonal; Sigma-Aldrich, S4045), nucleoli (human nucleolar positive control; Antibodies Incorporated) and secondary antibodies against rabbit coupled with DyLight488 (raised in donkey; Jackson Immuno Research), against mouse and rat coupled with Alexa594 (raised in goat, respectively donkey; Molecular Probes) and against human coupled with FITC or Alexa594 (raised in goat; Jackson Immuno Research or Molecular Probes, respectively). A detailed protocol for fixation and immunodetection procedure meeting the requirements for 3D-SIM imaging is provided in Additional file 8.
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3

Construction and Characterization of ZFC3H1 Plasmids

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To construct the expression plasmids of Flag-ZFC3H1 full length (FL) or fragments, the corresponding sequences were cloned into Flag-Phage using ClonExpress® Ultra One Step Cloning Kit (Vazyme Biotech Co., Ltd). The deletion or point mutation ZFC3H1 expression plasmids were constructed by mutagenesis using the KOD-Plus-Mutagenesis Kit (Takara). ZFC3H1-FL-ZsGreen and ZFC3H1-NP-ZsGreen were constructed by deletion of the sequence between ZFC3H1 and ZsGreen in Flag-ZFC3H1-FL and Flag-ZFC3H1-NP, respectively. Plasmids encoding Flag-eIF4A3 and Flag-DDX3 were described previously (20 (link),25 (link)). To generate construct for gene editing, sgRNA targeting ZFC3H1 was synthesized, annealed and ligated to the pX330-mCherry plasmid. The sgRNA sequence is shown in Supplementary Table S1. The Smad and β-globin constructs were described previously (28 (link)).
The CBP80, MTR4, UAP56 and ARS2 antibodies were described previously (20 (link)). Antibodies against PABPN1 (Abcam), ZFC3H1 (Novus), Flag (Sigma-Aldrich), GAPDH (Proteintech), Tubulin (Proteintech), SC35 (Sigma-Aldrich), digoxin (Roche) and SON (Thermo Fisher) were purchased. Alexa Fluor 546, Alexa Fluor 488 or Alexa Fluor 647 conjugated secondary antibodies were purchased from Life Technologies.
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4

Comprehensive Immunoblotting Antibody Panel

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ADAR1(Santa Cruz Biotechnology, sc-73408), alpha-Tubulin (Santa Cruz Biotechnology, sc-32293), COIL (Cell Signaling Technology, D2L3J, #14168), DHX9 (Abcam, ab183731), FLAG-M2 (Sigma, F3165), GFP (Chromotek, PAGB1), Myc-tag (Cell Signaling Technology, 9B11, #2276), Phospho-Rpb1 CTD (Ser2) (Cell Signaling Technology, E1Z3G, #13499), PNN (Abcam, ab244250), RBM25 (Sigma, HPA070713-100UL), SC-35 (Sigma, S4045), SRSF1 (SF2/ASF, Santa Cruz Biotechnology, sc-33652), SON (polyclonal rabbit, Sigma, HPA023535), SRRM1 (Abcam, ab221061), SRRM2 (Thermo Fisher Scientific, PA5-66827), SRSF2 (Abcam, ab28428), SRSF7 (MBL, RN079PW), U1-70K (Santa Cruz Biotechnology, sc-390899), U2AF65 (Santa Cruz Biotechnology, sc-53942).
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5

Multiprotein Characterization of mRNA Splicing

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CPSF73 (Sigma, C2747), Tubulin (Sigma, T6557), PABPN1 (Abcam, 75855), SC35 (Sigma, 4045), Dbr1 (Proteintech, 16019-1-AP), Pol II Serine 2-P (Chromotek, 3E10), Pol II H224 (Santa Cruz, sc-9001x), U2AF65 (Sigma, U4758), Anti flag (Sigma, MS2), Rrp6 (Abcam, 50558).
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6

Subcellular localization of NONO and SC-35

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Cells were seeded on coverslips and then fixed with 4% paraformaldehyde. Immunofluorescence staining was performed to determine the subcellular localization of NONO and SC-35 with the following antibodies: NONO antibody (Abcam) and SC-35 (Sigma-Aldrich; St. Louis, MO, USA). FAM or CY3 modified FISH probes were used to detect the GPX1 pre-mRNA and mature mRNA following the manufacturer's protocol (GenePharma).
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