Area	Images	Terms
stage 1-3		Stage 1-3  Expressed   Ubiquitous   Maternal   Localized    Subcellular localization patterns     Cytoplasmic foci  Degraded   Degraded partially stage 3
stage 4-5		Stage 4-5  Expressed   Ubiquitous   Maternal   Localized    Subcellular localization patterns     Yolk cortex localization  Degraded   Degraded partially stage 4   Degraded completely stage 5
stage 6-7		Stage 6-7  Expressed   Zygotic   Ubiquitous   Localized    Subcellular localization patterns     Nuclei-associated localization      Perinuclear localization       Perinuclear subset of nuclei        Perinuclear around blastoderm nuclei     Cytoplasmic foci
stage 8-9		Stage 8-9  Expressed   Zygotic   Ubiquitous   Localized    Subcellular localization patterns     Exclusionary patterns      Yolk plasm exclusion      Yolk cortex exclusion     Cytoplasmic foci
stage 10-17		Stage 10-17  Expressed   Zygotic   Ubiquitous

Area	Images	Terms

Area	Images	Terms

-performed via HCR-FISH using 3 probe sets targeting the RB isoform transcript

-appears to be weakly ubiquitous at all stages but not detectable at latest stages which agrees with modENCODE expression data

-BDGP in situ reports expression in the prothoracic pharyngeal muscles but this was not detected in this experiment

Area	Images	Terms
stage 1-3		Stage 1-3  Expressed   Zygotic    Zygotic starting stage 3   Ubiquitous   Localized    Subcellular localization patterns     Nuclei associated localization      Intranuclear accumulation       Accumulation in subset nuclei     Cytoplasmic foci
stage 4-5		Stage 4-5  Expressed   Zygotic    Pole cell nuclei     Subset pole cell nuclei    Blastoderm nuclei     Subset blastoderm nuclei      Posterior blastoderm nuclei      Dorsal blastoderm nuclei      Anterior blastoderm nuclei   Localized    Subcellular localization patterns     Yolk cortex localization      Yolk cortex enrichment     Ventral localization     Posterior localization     Nuclei-associated localization      Perinuclear localization       Perinuclear subset of nuclei        Perinuclear around blastoderm nuclei     Exclusionary patterns      Yolk plasm exclusion      Yolk cortex exclusion     Basal localization     Apical localization      Apical enrichment     Anterior localization    Embryonic localization patterns
stage 6-7		Stage 6-7  Expressed   Zygotic    Pole cell nuclei     Subset pole cell nuclei    Blastoderm nuclei     Subset blastoderm nuclei      Expression in ectoderm      Expression in API      Dorsal blastoderm nuclei   Localized    Yolk cortex localization     Yolk cortex enrichment    Subcellular localization patterns     Nuclei-associated localization      Perinuclear localization       Perinuclear subset of nuclei        Perinuclear around pole cell nuclei        Perinuclear around blastoderm nuclei      Intranuclear accumulation       Accumulation in subset nuclei     Exclusionary patterns      Yolk plasm exclusion      Yolk cortex exclusion     Cytoplasmic foci    Pole cell localization     Pole cell enrichment    Embryonic localization patterns     Dorsal localization
stage 8-9		Stage 8-9  Expressed   Zygotic    Germ cell nuclei     Subset pole cell nuclei    Blastoderm nuclei     Subset blastoderm nuclei      Expression in ectoderm      Expression in API      Expression in amnioserosa      Dorsal blastoderm nuclei   Localized    Yolk cortex localization     Yolk cortex enrichment    Subcellular localization patterns     Perinuclear localization      Perinuclear around pole cell nuclei     Exclusionary patterns      Yolk plasm exclusion      Yolk cortex exclusion     Cytoplasmic foci     Basal localization    Germ cell localization     Germ cell enrichment    Embryonic localization patterns     Dorsal localization  Degraded   Degraded partially stage 9
stage 10-17		Stage 10-17  Non-Expressed

Area	Images	Terms

Area	Images	Terms

-performed via HCR-FISH using 3 probe sets targeting the RA transcript isoform

-neat expression patterns in early embryos and early germ band elongation stages; expression is no longer detectable after stage 9-10 (fits modENCODE RNA-seq data well)