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Result Summary
| Number of genes | 14 | |
| Export | ||
Embryo
| Area | Images | Terms |
|---|---|---|
| stage 1-3 |
|
Stage 1-3 Expressed Weak expression (>41ms exp) Ubiquitous Maternal |
| stage 4-5 |
|
Stage 4-5 Expressed Weak expression (>41ms exp) Maternal Localized Subcellular localization patterns Exclusionary patterns Yolk plasm exclusion Embryonic localization patterns |
| stage 6-7 |
|
Stage 6-7 Expressed Weak expression (>41ms exp) Ubiquitous Maternal |
| stage 8-9 |
|
Stage 8-9 Expressed Weak expression (>41ms exp) Ubiquitous Maternal |
Larva
| Area | Images | Terms |
|---|
Adult
| Area | Images | Terms |
|---|
Comments
Embryo
| Area | Images | Terms |
|---|---|---|
| stage 1-3 |
|
Stage 1-3 Expressed Strong expression (1-20ms exp) Maternal Localized Embryonic localization patterns Exclusionary patterns Yolk cortex exclusion |
| stage 4-5 |
|
Stage 4-5 Expressed Maternal Localized Subcellular localization patterns Yolk plasm localization Yolk plasm enrichment Exclusionary patterns Yolk plasm exclusion Pole cell exclusion Basal exclusion Apical exclusion Embryonic localization patterns Degraded Degraded partially stage 5 Degradation maternal transcripts |
| stage 6-7 |
|
Stage 6-7 Expressed Maternal Localized Yolk plasm localization Yolk plasm enrichment Yolk cortex localization Yolk cortex enrichment Subcellular localization patterns Exclusionary patterns Basal exclusion Apical exclusion Embryonic localization patterns Exclusionary patterns Pole cell exclusion Degraded Degraded partially stage 7 Degraded partially stage 6 Degradation maternal transcripts |
| stage 8-9 |
|
Stage 8-9 Expressed Maternal Localized Yolk plasm localization Yolk plasm enrichment Yolk cortex localization Yolk cortex enrichment Subcellular localization patterns Exclusionary patterns Apical exclusion Embryonic localization patterns Degraded Degraded partially stage 8 Degradation maternal transcripts |
Larva
| Area | Images | Terms |
|---|
Adult
| Area | Images | Terms |
|---|
Comments
| I wish I had images from stage 10 and older :( |
| Re-annotated |
Embryo
| Area | Images | Terms |
|---|---|---|
| stage 1-3 |
|
Stage 1-3 Expressed Strong expression (1-20ms exp) Maternal Localized Embryonic localization patterns Exclusionary patterns Pole plasm excluded |
| stage 4-5 |
|
Stage 4-5 Expressed Maternal Localized Subcellular localization patterns Exclusionary patterns Yolk plasm exclusion Pole cell exclusion Basal exclusion Apical localization Apical enrichment Discrete apical foci Diffuse apical localization Embryonic localization patterns Degraded Degraded partially stage 5 Degradation maternal transcripts |
| stage 6-7 |
|
Stage 6-7 Expressed Maternal Localized Subcellular localization patterns Exclusionary patterns Yolk plasm exclusion Basal exclusion Apical localization Apical enrichment Discrete apical foci Diffuse apical localization Embryonic localization patterns Exclusionary patterns Pole cell exclusion |
| stage 8-9 |
|
Stage 8-9 Expressed Ubiquitous Maternal |
Larva
| Area | Images | Terms |
|---|
Adult
| Area | Images | Terms |
|---|
Comments
| The RNA is apically enriched and seems to be both diffusely localized and also forms dicrete cytoplasmic foci. |
Probe CR43314-RA Links: Permalink
Genes: CR43314
Embryo
| Area | Images | Terms |
|---|---|---|
| stage 1-3 |
|
Stage 1-3 Non-Expressed |
| stage 4-5 |
|
Stage 4-5 Expressed Zygotic Zygotic starting stage 5 Blastoderm nuclei Subset blastoderm nuclei Random blastoderm nuclei Central band of nuclei Anterior blastoderm nuclei All blastoderm nuclei Transiently widespread Ubiquitous Localized Subcellular localization patterns Nuclei-associated localization Intranuclear accumulation Accumulation in subset nuclei Exclusionary patterns Yolk plasm exclusion Yolk cortex exclusion Pole cell exclusion Cytoplasmic foci |
| stage 6-7 |
|
Stage 6-7 Expressed Zygotic Blastoderm nuclei Subset blastoderm nuclei Ventral blastoderm nuclei Expression in ectoderm Anterior blastoderm nuclei Ubiquitous Localized Subcellular localization patterns Nuclei-associated localization Intranuclear accumulation Accumulation in subset nuclei Cytoplasmic foci Embryonic localization patterns Ventral localization Dorsal localization Anterior localization |
| stage 8-9 |
|
Stage 8-9 Expressed Zygotic Blastoderm nuclei Subset blastoderm nuclei Ventral blastoderm nuclei Expression in ectoderm Expression in API Anterior blastoderm nuclei Localized Subcellular localization patterns Nuclei-associated localization Accumulation in subset nuclei |
| stage 10-17 |
|
Stage 10-17 Expressed Zygotic Sensory system Posterior spiracles Specific posterior spiracle pattern PNS Midgut Midgut subset Head Head epidermis Clypeo-labral bud Anal pad Localized Subcellular localization patterns Nuclei-associated localization Nuclear in PNS Nuclear in midgut nuclei Nuclear in ectoderm Foci Small Foci Small Foci in PNS Small Foci in ectoderm Bigger Foci Apical enrichment Apical ectoderm |
Larva
| Area | Images | Terms |
|---|
Adult
| Area | Images | Terms |
|---|
Comments
| -performed via HCR-FISH using 3 probe sets targeting the RA isoform transcript |
| -quite unique expression pattern that appear as highly localized and nuclear small foci along a strip of the early blastoderm; and as small highly localized foci in the early anterior-dorsal head, API, ventral cephalic furrow; and lastly in ectodermal regions of late stages representing PNS patterns |
| -images are from two separate experiments using different hairpin-fluorophores for signal amplification but otherwise identical conditions |
Embryo
| Area | Images | Terms |
|---|---|---|
| stage 1-3 |
|
Stage 1-3 Expressed Ubiquitous Maternal Localized Subcellular localization patterns Cytoplasmic foci Embryonic localization patterns Yolk plasm localization |
| stage 4-5 |
|
Stage 4-5 Expressed Ubiquitous Maternal Localized Subcellular localization patterns Yolk cortex localization Exclusionary patterns Yolk plasm exclusion Degraded Degraded partially stage 4 |
| stage 6-7 |
|
Stage 6-7 Expressed Zygotic Zygotic starting stage 6 Blastoderm nuclei Subset blastoderm nuclei Ventral blastoderm nuclei Expression in ectoderm All blastoderm nuclei Transiently widespread Ubiquitous Localized Subcellular localization patterns Nuclei-associated localization Perinuclear localization Perinuclear subset of nuclei |
| stage 8-9 |
|
Stage 8-9 Expressed Zygotic Blastoderm nuclei Subset blastoderm nuclei Ventral blastoderm nuclei Expression in ectoderm All blastoderm nuclei Persistent widespread Ubiquitous Localized Subcellular localization patterns Nuclei-associated localization Accumulation in subset nuclei Cytoplasmic foci Embryonic localization patterns Ventral localization |
| stage 10-17 |
|
Stage 10-17 Expressed Zygotic Segmented pattern PNS Maxillary complex Hindgut Germ cell nuclei Gonads CNS Ventral nerve cord Perinuclear VNC Axons Clypeo-labral bud Anal pad Ubiquitous Localized Subcellular localization patterns Perinuclear localization Perinuclear around ectoderm nuclei |
Larva
| Area | Images | Terms |
|---|
Adult
| Area | Images | Terms |
|---|
Comments
| -performed via HCR-FISH using 3 probe sets targeting the RB transcript isoform |
| -very diverse expression patterns in the late embryos; possibly expressed in the germ cell |
Embryo
| Area | Images | Terms |
|---|---|---|
| stage 1-3 |
|
Stage 1-3 Expressed Ubiquitous Maternal Localized Subcellular localization patterns Cytoplasmic foci |
| stage 4-5 |
|
Stage 4-5 Expressed Zygotic Ubiquitous Localized Subcellular localization patterns Exclusionary patterns Yolk plasm exclusion Cytoplasmic foci Degraded Degraded partially stage 4 |
| stage 6-7 |
|
Stage 6-7 Expressed Zygotic Zygotic starting stage 6 Blastoderm nuclei Ubiquitous Localized Subcellular localization patterns Nuclei-associated localization Intranuclear accumulation Accumulation in subset nuclei |
| stage 8-9 |
|
Stage 8-9 Non-Expressed |
| stage 10-17 |
|
Stage 10-17 Non-Expressed |
Larva
| Area | Images | Terms |
|---|
Adult
| Area | Images | Terms |
|---|
Comments
| -performed via HCR-FISH using 3 probe sets targeting the RA transcript isoform |
| -no longer detected after stages 6-7, probably expressed weakly and ubiquitously at all later stages |
Embryo
| Area | Images | Terms |
|---|---|---|
| stage 1-3 |
|
Stage 1-3 Expressed Weak expression (>41ms exp) Ubiquitous Maternal Localized Subcellular localization patterns Cytoplasmic foci |
| stage 4-5 |
|
Stage 4-5 Expressed Weak expression (>41ms exp) Maternal Localized Subcellular localization patterns Exclusionary patterns Yolk plasm exclusion Pole cell exclusion Cytoplasmic foci Apical localization Apical enrichment Discrete apical foci Diffuse apical localization Anterior localization Embryonic localization patterns Degraded Degraded partially stage 5 Degradation maternal transcripts |
| stage 6-7 |
|
Stage 6-7 Expressed Zygotic Zygotic starting stage 7 Blastoderm nuclei Subset blastoderm nuclei Random blastoderm nuclei Expression in API Weak expression (>41ms exp) Localized Subcellular localization patterns Cytoplasmic foci |
| stage 8-9 |
|
Stage 8-9 Expressed Zygotic Blastoderm nuclei Subset blastoderm nuclei Random blastoderm nuclei Expression in amnioserosa Weak expression (>41ms exp) |
Larva
| Area | Images | Terms |
|---|
Adult
| Area | Images | Terms |
|---|
Comments
| Note: this in situ was done twice with the same result The next gene on the plate has a similar expression pattern |
| Nice anterior to posterior gradient. Apical expression. Cytoplasmic foci also in a gradient anterior to posterior. Very interesting. |
Embryo
| Area | Images | Terms |
|---|---|---|
| stage 1-3 |
|
Stage 1-3 Expressed Ubiquitous Medium expression (21-40ms exp) Maternal |
| stage 4-5 |
|
Stage 4-5 Expressed Weak expression (>41ms exp) Maternal Localized Subcellular localization patterns Pole cell localization Pole cell enrichment Exclusionary patterns Yolk plasm exclusion Yolk cortex exclusion Basal exclusion Apical exclusion Degraded Degraded partially stage 5 Degradation maternal transcripts |
| stage 6-7 |
|
Stage 6-7 Degraded Degraded completely stage 6 Degradation maternal transcripts |
Larva
| Area | Images | Terms |
|---|
Adult
| Area | Images | Terms |
|---|
Comments
Embryo
| Area | Images | Terms |
|---|---|---|
| stage 1-3 |
|
Stage 1-3 Expressed Weak expression (>41ms exp) Maternal Localized Subcellular localization patterns Anterior localization Embryonic localization patterns |
| stage 4-5 |
|
Stage 4-5 Expressed Weak expression (>41ms exp) Maternal Localized Subcellular localization patterns Posterior localization Exclusionary patterns Yolk plasm exclusion Basal exclusion Apical localization Apical enrichment Diffuse apical localization Apical clusters Anterior localization Degraded Degraded partially stage 4 Degradation maternal transcripts |
| stage 6-7 |
|
Stage 6-7 Non-Expressed Degraded Degraded completely stage 6 Degradation maternal transcripts |
| stage 8-9 |
|
Stage 8-9 Expressed Zygotic Zygotic starting stage 9 Blastoderm nuclei Subset blastoderm nuclei Expression in neuroblasts Expression in mesoderm Expression in ectoderm Expression in API Localized |
| stage 10-17 |
|
Stage 10-17 Expressed Zygotic Ectoderm CNS Ventral nerve cord Blastoderm nuclei Amnioserosa Localized Subcellular localization patterns Perinuclear localization Perinuclear around CNS nuclei Foci Small Foci Small Foci in other tissues Small Foci in CNS |
Larva
| Area | Images | Terms |
|---|
Adult
| Area | Images | Terms |
|---|
Comments
| Central nervous system |
| Anterior gradient. |
Embryo
| Area | Images | Terms |
|---|---|---|
| stage 1-3 |
|
Stage 1-3 Expressed Ubiquitous Maternal Degraded Degraded partially stage 3 Degradation maternal transcripts |
| stage 4-5 |
|
Stage 4-5 Expressed Zygotic Zygotic starting stage 5 Pole cell nuclei Blastoderm nuclei Subset blastoderm nuclei Ventral blastoderm nuclei All blastoderm nuclei Transiently widespread Ubiquitous Localized Subcellular localization patterns Nuclei-associated localization Perinuclear localization Perinuclear subset of nuclei Perinuclear around blastoderm nuclei Intranuclear accumulation Accumulation in subset nuclei Exclusionary patterns Yolk plasm exclusion Basal localization Apical localization |
| stage 6-7 |
|
Stage 6-7 Expressed Zygotic Blastoderm nuclei Subset blastoderm nuclei Ventral blastoderm nuclei Segmented pattern Pair-rule pattern Expression in mesoderm Expression in ectoderm Expression in API Dorsal blastoderm nuclei Anterior blastoderm nuclei All blastoderm nuclei Transiently widespread Ubiquitous Localized Subcellular localization patterns Nuclei-associated localization Perinuclear localization Perinuclear subset of nuclei Perinuclear around blastoderm nuclei Intranuclear accumulation Accumulation in subset nuclei Cytoplasmic foci Basal localization Basal enrichment Embryonic localization patterns Ventral localization Dorsal localization |
| stage 8-9 |
|
Stage 8-9 Expressed Zygotic Blastoderm nuclei Subset blastoderm nuclei Single stripe Expression in ectoderm Anterior blastoderm nuclei Ubiquitous Localized Subcellular localization patterns Cytoplasmic foci Embryonic localization patterns Ventral localization Dorsal localization Anterior localization |
| stage 10-17 |
|
Stage 10-17 Expressed Zygotic Tracheal system Tracheal pits Sensory system Posterior spiracles Muscles-embryo Visceral mesoderm Hindgut Head Head epidermis Dorsal vessel CNS Ventral nerve cord Foci - VNC Axons Ubiquitous Localized Subcellular localization patterns Nuclei-associated localization Foci Small Foci Small Foci in PNS Small Foci in head Small Foci in ectoderm Small Foci in CNS |
Larva
| Area | Images | Terms |
|---|
Adult
| Area | Images | Terms |
|---|
Comments
| -performed via HCR-FISH using 3 probe sets targeting the RB transcript isoform |
| -neat and diverse expression patterns throughout development |
| -images are from two separate experiments under identical conditions for better coverage |
Embryo
| Area | Images | Terms |
|---|---|---|
| stage 1-3 |
|
Stage 1-3 Expressed Ubiquitous Medium expression (21-40ms exp) Maternal |
| stage 4-5 |
|
Stage 4-5 Expressed Weak expression (>41ms exp) Maternal Localized Subcellular localization patterns Pole cell localization Pole cell enrichment Exclusionary patterns Yolk plasm exclusion Yolk cortex exclusion Basal exclusion Apical exclusion Embryonic localization patterns |
Larva
| Area | Images | Terms |
|---|
Adult
| Area | Images | Terms |
|---|
Comments
Probe CR33754 Links: Permalink
Genes: snoRNA:(psi)28S-291
Embryo
| Area | Images | Terms |
|---|---|---|
| stage 1-3 |
|
Stage 1-3 Expressed Weak expression (>41ms exp) Ubiquitous Maternal Localized Subcellular localization patterns Nuclei associated localization Perinuclear localization Perinuclear around all nuclei Cytoplasmic foci |
| stage 4-5 |
|
Stage 4-5 Expressed Zygotic Yolk nuclei Subset yolk nuclei Ubiquitous Medium expression (21-40ms exp) Maternal Localized Subcellular localization patterns Yolk cortex localization 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 Cytoplasmic foci |
| stage 6-7 |
|
Stage 6-7 Expressed Zygotic Yolk Nuclei All yolk nuclei Pole cell nuclei All pole cell nuclei Blastoderm nuclei All blastoderm nuclei Ubiquitous Medium expression (21-40ms exp) Localized Subcellular localization patterns Nuclei-associated localization Intranuclear accumulation Accumulation in all nuclei |
| stage 8-9 |
|
Stage 8-9 Expressed Zygotic Ubiquitous Medium expression (21-40ms exp) Localized Subcellular localization patterns Cytoplasmic foci |
| stage 10-17 |
|
Stage 10-17 Expressed Zygotic Salivary glands Midgut Hindgut Foregut Ubiquitous Medium expression (21-40ms exp) Localized Subcellular localization patterns Foci Small Foci Small Foci in salivary glands Small Foci in hindgut |
Larva
| Area | Images | Terms |
|---|
Adult
| Area | Images | Terms |
|---|
Comments
Embryo
| Area | Images | Terms |
|---|---|---|
| stage 1-3 |
|
Stage 1-3 Non-Expressed |
| stage 4-5 |
|
Stage 4-5 Expressed Zygotic Zygotic starting stage 4 Blastoderm nuclei Subset blastoderm nuclei Ventral blastoderm nuclei Posterior blastoderm nuclei Anterior blastoderm nuclei Localized Subcellular localization patterns Ventral localization Posterior localization Nuclei-associated localization Perinuclear localization Perinuclear subset of nuclei Perinuclear around blastoderm nuclei Exclusionary patterns Yolk plasm exclusion Pole cell exclusion Cytoplasmic foci Basal localization Basal enrichment Apical localization Apical enrichment Diffuse apical localization Anterior localization |
| stage 6-7 |
|
Stage 6-7 Expressed Zygotic Blastoderm nuclei Subset blastoderm nuclei Ventral blastoderm nuclei Expression in mesoderm Expression in ectoderm Anterior blastoderm nuclei Localized Yolk cortex localization Yolk cortex enrichment Subcellular localization patterns Nuclei-associated localization Perinuclear localization Perinuclear subset of nuclei Perinuclear around blastoderm nuclei Exclusionary patterns Yolk cortex exclusion Basal localization Basal enrichment Apical localization Apical enrichment Diffuse apical localization Posterior localization Embryonic localization patterns Anterior localization |
| stage 8-9 |
|
Stage 8-9 Expressed Zygotic Blastoderm nuclei Subset blastoderm nuclei Segmented pattern Pair-rule pattern Expression in mesoderm Expression in ectoderm Expression in API Localized Subcellular localization patterns Perinuclear localization Perinuclear around blastoderm nuclei Cytoplasmic foci Basal localization Basal enrichment Embryonic localization patterns Ventral localization Germ band localization Dorsal localization Anterior localization Degraded Degraded partially stage 9 |
| stage 10-17 |
|
Stage 10-17 Expressed Zygotic Muscles-embryo Visceral mesoderm Specific visceral mesoderm pattern Muscles - subregion Hindgut Head Foregut Esophagus Ectoderm Localized Subcellular localization patterns Perinuclear localization Perinuclear around muscle nuclei |
Larva
| Area | Images | Terms |
|---|
Adult
| Area | Images | Terms |
|---|
Comments
| -retested using HCR-FISH 2025 for full coverage of late stage expression patterns |
| -performed using 3 probe pairs (HCR-FISH) against the RB isoform |
| -really interesting patterns! |
Embryo
| 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 |
Larva
| Area | Images | Terms |
|---|
Adult
| Area | Images | Terms |
|---|
Comments
| -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) |