Key resources table.
| Reagent type (species) or resource |
Designation | Source or reference | Identifiers | Additional information |
|---|---|---|---|---|
| Recombinant DNA reagent | pGBT-RP2.1 | Clark et al., 2011a | RRID:Addgene_31828, Genbank: HQ335170 | Figure 1A |
| Recombinant DNA reagent | pGBT-RP2.2 | This paper | Genbank: MT815588 | Figure 1A |
| Recombinant DNA reagent | pGBT-RP2.3 | This paper | Genbank: MT815589 | Figure 1A |
| Recombinant DNA reagent | pGBT-RP8.1 | This paper | Genbank: MT815590 | Figure 1B |
| Recombinant DNA reagent | pGBT-RP8.2 | This paper | Genbank: MT815591 | Figure 1B |
| Recombinant DNA reagent | pGBT-RP8.3 | This paper | Genbank: MT815592 | Figure 1B |
| Recombinant DNA reagent | pGBT-RP7.1 | This paper | An intermediate construct to create pGBT-RP8.1 | |
| Recombinant DNA reagent | pGBT-RP6.1 | This paper | An intermediate construct to create pGBT-RP8.1 | |
| Recombinant DNA reagent | pGBT-RP5.1 | This paper | An intermediate construct of pGBT-RP8.1 | |
| Recombinant DNA reagent | pre(−1)GBT-RP5.1 | This paper | An intermediate construct of pGBT-RP5.1 | |
| Recombinant DNA reagent | pre(−2)GBT-RP5.1 | This paper | An intermediate construct of pGBT-RP5.1 | |
| Recombinant DNA reagent | pre(−3)GBT-RP5.1 | This paper | An intermediate construct of pGBT-RP5.1 | |
| Recombinant DNA reagent | pKTol2-SE | Clark et al., 2011b | ||
| Recombinant DNA reagent | pUC57-I-SceI_LoxP_Splice | This paper | DNA source to create pre(−3)GBT-RP5.1 | |
| Recombinant DNA reagent | pUC57 | Genscript | SD1176 | |
| Recombinant DNA reagent | pKTol2gC-nlsTagBFP | This paper | DNA source to create pre(−2)GBT-RP5.1 | |
| Recombinant DNA reagent | pGBT-R15 | Clark et al., 2011a | RRID:Addgene_31826, Genbank ID: HQ335168 | |
| Recombinant DNA reagent | pGBT-PX | Sivasubbu et al., 2006 | RRID:Addgene_31824, Genbank ID: HQ335166 | |
| Recombinant DNA reagent | pCR4-bactmIntron | This paper | DNA source to create pGBT-RP8.1 | |
| Recombinant DNA reagent | pCR4-bact_I1 | This paper | DNA source of the carp beta-actin intron amplified from pGBT-RP2.1 | |
| Recombinant DNA reagent | pCR4-TOPO | Invitrogen | 450030 | |
| Recombinant DNA reagent | pEXPR-mylpfa:GCaMP3 | Baxendale et al., 2012 | ||
| Chemical compound, drug | phenylthiocarbamide | Sigma-Aldrich | P7629 | |
| Chemical compound, drug | tricaine | Sigma-Aldrich | A5040 | |
| Chemical compound, drug | low melt agarose | Fisher Scientific | BP1360 | |
| Chemical compound, drug | pentylenetetrazole | Sigma-Aldrich | P6500 | |
| Chemical compound, drug | (S)-(-)-blebbistatin | Tocris | 1852 | |
| Chemical compound, drug | β-mercaptoethanol | Sigma-Aldrich | M6250 | |
| Chemical compound, drug | proteinase K | Roche | 3115879001 | |
| Commercial assay or kit | T4 DNA ligase | New England Biolabs | M0202S | |
| Commercial assay or kit | RNeasy Micro Kit | QIAGEN | 74004 | |
| Commercial assay or kit | Stainless steel beads | Next Advance | SSB05 | |
| Commercial assay or kit | MaXtract High Density tubes | QIAGEN | 129056 | |
| Commercial assay or kit | SuperScript II Reverse Transcriptase | Thermo Fisher Scientific | 18064014 | |
| Commercial assay or kit | SensiFAST SYBR Lo-ROX kit | Bioline | BIO-94005 | |
| Commercial assay or kit | QIAquick Gel Extraction Kit | QIAGEN | 28704 | |
| Software, algorithm | GraphPad Prism 8 | GrapgPad | RRID:SCR_002798 | |
| Software, algorithm | R | www.R-project.org | RRID:SCR_001905 | |
| Software, algorithm | R-Studio | www.rstudio.com/ | ||
| Software, algorithm | pwr package | https://CRAN.R-project.org/package=pwr | ||
| Software, algorithm | wilcox.test function | www.R-project.org | ||
| Software, algorithm | coin package | Hothorn et al., 2006, Hothorn et al., 2008 | ||
| Software, algorithm | outliers package | https://CRAN.R-project.org/package=outliers | ||
| Software, algorithm | effsize package | https://CRAN.R-project.org/package=effsize | ||
| Software, algorithm | JMP version 14 | http://www.jmp.com/en_us/software/jmp.html | RRID:SCR_014242 | |
| Software, algorithm | SynFind | https://genomevolution.org/CoGe/SynFind.pl | ||
| Software, algorithm | BLASTP | http://blast.ncbi.nlm.nih.gov/Blast.cgi?PROGRAM=blastp&PAGE_TYPE=BlastSearch&LINK_LOC=blasthome | RRID:SCR_001010 | |
| Software, algorithm | BioMart, Ensembl tool | http://useast.ensembl.org/biomart/martview/ | RRID:SCR_002344 | |
| Software, algorithm | PANTHER version 14.1 | http://www.pantherdb.org/ | RRID:SCR_004869 | |
| Software, algorithm | FIJI | https://fiji.sc/ | RRID:SCR_002285 | |
| Software, algorithm | MetaMorph Microscopy Automation and Image Analysis Software | Molecular Devices | RRID:SCR_002368 | |
| Software, algorithm | Digidata 1440A | Molecular Devices | ||
| Software, algorithm | Clampex 10.3 | Molecular Devices | ||
| Software, algorithm | Integrative Genomics Viewer (version 2.4.19) | Thorvaldsdóttir et al., 2013 | RRID:SCR_011793 | |
| Software, algorithm | Galaxy | https://usegalaxy.org/ | RRID:SCR_006281 | |
| Software, algorithm | BAMtools | Barnett et al., 2011 | RRID:SCR_015987 | |
| Software, algorithm | TopHat | Kim et al., 2013 | RRID:SCR_013035 | |
| Software, algorithm | Zebrafish Information Network (ZFIN) | https://zfin.org/ | RRID:SCR_002560 | |
| Software, algorithm | Ensembl | https://useast.ensembl.org/index.html | RRID:SCR_002344 | |
| Software, algorithm | InParanoid version 8 | http://inparanoid.sbc.su.se/cgi-bin/index.cgi | RRID:SCR_006801 | |
| Software, algorithm | The Human Protein Atlas | www.proteinatlas.org | RRID:SCR_006710 | |
| Software, algorithm | UniProtKB | https://www.uniprot.org/ | RRID:SCR_004426 | |
| Software, algorithm | Online Mendelian Inheritance in Man (OMIM) | https://omim.org/ | RRID:SCR_006437 | |
| Software, algorithm | Mouse Genome Informatics (MGI) | http://www.informatics.jax.org | RRID:SCR_006460 | |
| Software, algorithm | zfishbook | https://zfishbook.org/ | RRID:SCR_006896 | |
| Other | RNA-seq dataset | White et al., 2017 | GRCz10.WTSI.36hpf.1.bam | ftp://ftp.ensembl.org/pub/data_files/danio_rerio/GRCz10/rnaseq/ |
| Other | RNA-seq dataset | White et al., 2017 | GRCz10.WTSI.48hpf.1.bam | ftp://ftp.ensembl.org/pub/data_files/danio_rerio/GRCz10/rnaseq/ |
| Other | RNA-seq dataset | White et al., 2017 | GRCz10.WTSI.4dpf.1.bam | ftp://ftp.ensembl.org/pub/data_files/danio_rerio/GRCz10/rnaseq/ |