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Result Summary
| Number of genes | 23 | |
| Export | ||
Embryo
| Area | Images | Terms |
|---|---|---|
| stage 1-3 |
|
Stage 1-3 Non-Expressed |
| stage 4-5 |
|
Stage 4-5 Expressed Zygotic Blastoderm nuclei Subset blastoderm nuclei Segmented pattern Pair-rule pattern Localized Subcellular localization patterns Ventral localization Posterior localization Dorsal localization Anterior localization |
| stage 6-7 |
|
Stage 6-7 Expressed Zygotic Blastoderm nuclei Subset blastoderm nuclei Segmented pattern Pair-rule pattern Expression in ectoderm Localized Posterior localization Embryonic localization patterns Ventral localization Dorsal localization Anterior localization |
| stage 8-9 |
|
Stage 8-9 Expressed Zygotic Blastoderm nuclei Subset blastoderm nuclei Segmented pattern Pair-rule pattern Expression in ectoderm Localized Embryonic localization patterns Ventral localization Posterior localization Germ band localization Dorsal localization Anterior localization |
| stage 10-17 |
|
Stage 10-17 Expressed Zygotic Sensory system Malpighian tubules Head Head epidermis Ectoderm Anal pad |
Larva
| Area | Images | Terms |
|---|
Adult
| Area | Images | Terms |
|---|
Comments
| -performed via HCR-FISH using 3 probe sets targeting the RA isoform transcript |
Embryo
| Area | Images | Terms |
|---|---|---|
| stage 1-3 |
|
Stage 1-3 Expressed Weak expression (>41ms exp) Maternal Localized Subcellular localization patterns Cytoplasmic foci |
| stage 4-5 |
|
Stage 4-5 Expressed Weak expression (>41ms exp) Maternal Localized Subcellular localization patterns Other subcellular pattern Membrane associated Exclusionary patterns Pole cell exclusion Basal exclusion Dorsal localization Cytoplasmic foci Cell junction associated Apical localization Apical enrichment Discrete apical foci Apical clusters Embryonic localization patterns |
| stage 6-7 |
|
Stage 6-7 Expressed Weak expression (>41ms exp) Maternal Localized Subcellular localization patterns Other subcellular pattern Membrane associated Exclusionary patterns Yolk plasm exclusion Basal exclusion Cytoplasmic foci Cell junction associated Apical localization Apical enrichment Discrete apical foci Apical clusters Embryonic localization patterns Exclusionary patterns Pole cell exclusion Dorsal localization |
| stage 8-9 |
|
Stage 8-9 Expressed Zygotic Blastoderm nuclei Subset blastoderm nuclei Expression in ectoderm Expression in amnioserosa Weak expression (>41ms exp) Localized Subcellular localization patterns Other subcellular pattern Membrane associated Cytoplasmic foci Apical localization Apical enrichment Discrete apical foci Apical clusters Embryonic localization patterns |
| stage 10-17 |
|
Stage 10-17 Expressed Zygotic Salivary glands Posterior spiracles Head Head epidermis Esophagus Ectoderm Polarized Ectoderm CNS Polarized CNS Blastoderm nuclei Amnioserosa Localized Subcellular localization patterns Nuclei-associated localization Nuclear in CNS Accumulation nuclear subregion Foci Small Foci Small Foci in ectoderm Small Foci in amnioserosa Bigger Foci Apical enrichment Apical ectoderm |
Larva
| Area | Images | Terms |
|---|
Adult
| Area | Images | Terms |
|---|---|---|
| Male reproductive tissues |
|
Adult Tissues Male reproductive tissues Testis Testis Cell type and stage - TE Terminal Epithelium - TE Cytoplasmic in terminal epithelium - TE Spermatogonium-TE Cytoplasmic in spermatogonium-TE Spermatocytes -TE Late Spermatocytes- TE Cytoplasmic in late spermatocytes - TE Cytoplasmic in Spermatocytes - TE Spermatids -TE Round spermatids-TE Cytoplasmic in round spermatids-TE Individualizing Spermatids - TE Cystic bulge - TE Elongating Spermatids - TE Cytoplasmic in elongating spermatids-TE Cyst cells -TE Tail cyst cell - TE Elongating Tail Cyst Cell - TE Elongating Tail Cyst Cell Cytoplasm - TE Subcellularly localized - TE Expression level-TE Expressed Low - TE Distal tip region-TE Not Expressed in distal tip region -TE Seminal Vesicle Subcellularly localized - SV Lumenal-SV Scattered Foci - SV Cell type - SV Cytoplasmic-SV Perinuclear - SV Membrane enriched - SV Cytoplasmic Foci - SV Ejaculatory Duct Subcellularly localized - ED Lumenal-ED Sleeve - ED Non-particulate - ED Expression level-ED Expressed Low - ED Cell type - ED Cytoplasmic-ED Membrane enriched - ED Accessory Gland Subcellularly localized - AG Lumenal - AG Non-particulate - AG Expression level-AG Expressed Low - AG Cell type - AG Secondary cells - AG Cytoplasmic-SC Main cells -AG Cytoplasmic-MC Membrane Enriched-MC |
Comments
| Good probe on gel, a bit low. Very nice insitu... interesting patterns. |
| Membrane localization apically, in small clusters. Very interesting. |
| Membrane localization apically, in clusters. Very interesting. |
| Salivary glands, probably non-specific. |
Embryo
| Area | Images | Terms |
|---|---|---|
| stage 1-3 |
|
Stage 1-3 Expressed Weak expression (>41ms exp) Ubiquitous Maternal |
| stage 4-5 |
|
Stage 4-5 Expressed Zygotic Zygotic starting stage 4 Yolk nuclei Subset yolk nuclei Random yolk nuclei Posterior yolk nuclei Blastoderm nuclei Subset blastoderm nuclei Random blastoderm nuclei Posterior blastoderm nuclei Weak expression (>41ms exp) Maternal Localized Subcellular localization patterns Yolk plasm localization Yolk plasm enrichment Yolk cortex localization Yolk cortex enrichment Posterior localization Nuclei-associated localization Perinuclear localization Perinuclear subset of nuclei Perinuclear around yolk nuclei Perinuclear around blastoderm nuclei Intranuclear accumulation Accumulation in subset nuclei Exclusionary patterns Pole cell exclusion Apical exclusion Dorsal localization Cell division apparatus Chromatin associated metaphase Basal localization Basal enrichment Embryonic localization patterns |
| stage 6-7 |
|
Stage 6-7 Expressed Zygotic Yolk Nuclei Subset yolk nuclei Random yolk nuclei Posterior yolk nuclei Blastoderm nuclei Subset blastoderm nuclei Posterior blastoderm nuclei Dorsal blastoderm nuclei Weak expression (>41ms exp) Maternal Localized Yolk plasm localization Yolk plasm enrichment Yolk cortex localization Yolk cortex enrichment Subcellular localization patterns Nuclei-associated localization Perinuclear localization Perinuclear subset of nuclei Perinuclear around yolk nuclei Intranuclear accumulation Accumulation nuclear subregion Accumulation in subset nuclei Posterior localization |
| stage 8-9 |
|
Stage 8-9 Expressed Zygotic Yolk nuclei Subset yolk nuclei All yolk nuclei Blastoderm nuclei Subset blastoderm nuclei Expression in amnioserosa Weak expression (>41ms exp) Maternal Localized Yolk plasm localization Yolk plasm enrichment Subcellular localization patterns Perinuclear localization Perinuclear around yolk nuclei Nuclei-associated localization Intranuclear accumulation Accumulation nuclear subregion |
| stage 10-17 |
|
Stage 10-17 Expressed Zygotic Yolk nuclei Perinuclear around yolk nuclei Inside Yolk nuclei Salivary glands Localized Subcellular localization patterns Perinuclear localization Perinuclear polarized Nuclei-associated localization Accumulation nuclear subregion |
Larva
| Area | Images | Terms |
|---|
Adult
| Area | Images | Terms |
|---|
Comments
| Salivary glands, probably non-specific. |
| The probe looks good on gel The photos are from a combination of 2 experiments. One had a brighter probe than the other, which explains why some photos are brighter than others. |
Probe CG31131-ex Links: Permalink
Genes: CG31131
Embryo
| Area | Images | Terms |
|---|---|---|
| stage 1-3 |
|
Stage 1-3 Non-Expressed |
| stage 4-5 |
|
Stage 4-5 Expressed Zygotic Blastoderm nuclei Subset blastoderm nuclei Segmented pattern Pair-rule pattern Localized Subcellular localization patterns Posterior localization Dorsal localization Anterior localization |
| stage 6-7 |
|
Stage 6-7 Expressed Zygotic Blastoderm nuclei Subset blastoderm nuclei Segmented pattern Pair-rule pattern Localized Posterior localization Embryonic localization patterns Dorsal localization Anterior localization |
| stage 8-9 |
|
Stage 8-9 Expressed Zygotic Blastoderm nuclei Subset blastoderm nuclei Segmented pattern Pair-rule pattern Weak expression (>41ms exp) Ubiquitous Localized Embryonic localization patterns Posterior localization Dorsal localization Anterior localization |
| stage 10-17 |
|
Stage 10-17 Expressed Zygotic Ectoderm Weak expression (>41ms exp) Ubiquitous |
Larva
| Area | Images | Terms |
|---|
Adult
| Area | Images | Terms |
|---|
Comments
| -performed via HCR-FISH using 3 probe sets targeting common exons |
| -modENCODE RNAseq data on FlyBase shows low/no expression, however, we observed strong expression patterns throughout development |
Embryo
| Area | Images | Terms |
|---|---|---|
| stage 1-3 |
|
Stage 1-3 Expressed Weak expression (>41ms exp) Ubiquitous Maternal Degraded Degraded partially stage 2 Degradation maternal transcripts |
| stage 4-5 |
|
Stage 4-5 Expressed Zygotic Zygotic starting stage 4 Yolk nuclei Subset yolk nuclei Random yolk nuclei Blastoderm nuclei Subset blastoderm nuclei Random blastoderm nuclei Dorsal blastoderm nuclei Medium expression (21-40ms exp) Localized Subcellular localization patterns Nuclei-associated localization Perinuclear localization Perinuclear subset of nuclei Perinuclear around yolk nuclei Intranuclear accumulation Accumulation nuclear subregion Exclusionary patterns Pole cell exclusion Dorsal localization Cell division apparatus Chromatin associated metaphase Basal localization Basal enrichment Apical localization Embryonic localization patterns |
| stage 6-7 |
|
Stage 6-7 Expressed Zygotic Yolk Nuclei Subset yolk nuclei Random yolk nuclei Localized Subcellular localization patterns Nuclei-associated localization Perinuclear localization Perinuclear subset of nuclei Perinuclear around yolk nuclei Intranuclear accumulation Accumulation nuclear subregion Embryonic localization patterns Dorsal localization |
| stage 8-9 |
|
Stage 8-9 Expressed Zygotic Blastoderm nuclei Subset blastoderm nuclei Expression in neuroblasts Expression in amnioserosa Localized Subcellular localization patterns Perinuclear localization Perinuclear subset of nuclei Other subcellular pattern Nuclei-associated localization Cell junction associated Embryonic localization patterns Dorsal localization |
| stage 10-17 |
|
Stage 10-17 Expressed Zygotic Yolk nuclei Yolk nuclei 'podia' Perinuclear around yolk nuclei Tracheal system Specific tracheal branches Sensory system Segmented pattern Proventriculus PNS Midgut Midgut subset Hindgut Specific hindgut area or cells Midgut hindgut border Head Ectoderm Polarized Ectoderm Dorsal vessel Dorsal vessel specific pattern CNS Ventral nerve cord Blastoderm nuclei Localized Subcellular localization patterns Perinuclear localization Perinuclear polarized Foci Small Foci Small Foci in ectoderm Bigger Foci Cell junction associated Cell extensions or 'podia' |
Larva
| Area | Images | Terms |
|---|
Adult
| Area | Images | Terms |
|---|
Comments
| Good probe. Amazing insitu! Little maternal. |
| Sub-cellular localization at the edges of amnioserosa cells. |
| Great patterns! |
Embryo
| Area | Images | Terms |
|---|---|---|
| stage 1-3 |
|
Stage 1-3 Expressed Weak expression (>41ms exp) Ubiquitous Maternal |
| stage 4-5 |
|
Stage 4-5 Expressed Zygotic Zygotic starting stage 4 Yolk nuclei Subset yolk nuclei Random yolk nuclei Blastoderm nuclei Subset blastoderm nuclei Segmented pattern Gap-gene pattern Weak expression (>41ms exp) Localized Subcellular localization patterns Exclusionary patterns Pole cell exclusion Dorsal localization Cytoplasmic foci Basal localization Apical localization Apical enrichment Diffuse apical localization Embryonic localization patterns |
| stage 6-7 |
|
Stage 6-7 Expressed Zygotic Blastoderm nuclei Subset blastoderm nuclei Segmented pattern Gap-gene pattern Weak expression (>41ms exp) Localized Subcellular localization patterns Exclusionary patterns Basal localization Basal enrichment Apical localization Apical enrichment Diffuse apical localization Embryonic localization patterns Exclusionary patterns Pole cell exclusion |
| stage 8-9 |
|
Stage 8-9 Expressed Zygotic Blastoderm nuclei Subset blastoderm nuclei Segmented pattern Expression in ectoderm Expression in amnioserosa Weak expression (>41ms exp) Localized Subcellular localization patterns Cytoplasmic foci |
| stage 10-17 |
|
Stage 10-17 Expressed Zygotic Yolk nuclei Inside Yolk nuclei Tracheal system Tracheal lumen Salivary glands Salivary glands lumen Localized Subcellular localization patterns Nuclei-associated localization Accumulation nuclear subregion |
Larva
| Area | Images | Terms |
|---|
Adult
| Area | Images | Terms |
|---|
Comments
| Salivary glands and tracheal lumen, probably non-specific. |
| Ventral excluded! |
| Good probe on gel, a bit low. |
Embryo
| Area | Images | Terms |
|---|---|---|
| stage 1-3 |
|
Stage 1-3 Expressed Zygotic Zygotic starting stage 3 Cortical nuclei All cortical nuclei Ubiquitous Localized Subcellular localization patterns Nuclei associated localization Cytoplasmic foci |
| stage 4-5 |
|
Stage 4-5 Expressed Zygotic Yolk nuclei Subset yolk nuclei Random yolk nuclei Blastoderm nuclei Subset blastoderm nuclei Ventral blastoderm nuclei Dorsal blastoderm nuclei All blastoderm nuclei Transiently widespread Ubiquitous Localized Subcellular localization patterns Yolk plasm localization Ventral localization Nuclei-associated localization Perinuclear localization Perinuclear subset of nuclei Perinuclear around yolk nuclei Perinuclear around blastoderm nuclei Intranuclear accumulation Accumulation in subset nuclei Exclusionary patterns Pole cell exclusion Dorsal localization Cytoplasmic foci |
| stage 6-7 |
|
Stage 6-7 Expressed Zygotic Blastoderm nuclei Subset blastoderm nuclei Expression in mesoderm Expression in ectoderm Expression in API All blastoderm nuclei Ubiquitous Localized Subcellular localization patterns Nuclei-associated localization Cytoplasmic foci |
| stage 8-9 |
|
Stage 8-9 Expressed Zygotic Blastoderm nuclei Subset blastoderm nuclei Expression in mesoderm Expression in ectoderm Expression in API All blastoderm nuclei Transiently widespread Ubiquitous Localized Subcellular localization patterns Cytoplasmic foci Germ cell localization Germ cell enrichment Degraded Degraded partially stage 9 |
| stage 10-17 |
|
Stage 10-17 Non-Expressed |
Larva
| Area | Images | Terms |
|---|
Adult
| Area | Images | Terms |
|---|
Comments
| -probes were designed against RA isoform |
| -tested using HCR-FISH probes (3 probe sets) |
| -expression pattern aligns well with modENCODE RNA-seq data -observed possible early lateral or dorsal-ventral localization of early ectoderm |
| -bright foci is mostly background |
Embryo
| Area | Images | Terms |
|---|---|---|
| stage 1-3 |
|
Stage 1-3 Expressed Weak expression (>41ms exp) Ubiquitous Maternal |
| stage 4-5 |
|
Stage 4-5 Expressed Zygotic Zygotic starting stage 4 Yolk nuclei Subset yolk nuclei Random yolk nuclei Blastoderm nuclei Subset blastoderm nuclei Segmented pattern Dorsal blastoderm nuclei Weak expression (>41ms exp) Maternal Localized Subcellular localization patterns Yolk cortex localization Yolk cortex enrichment Nuclei-associated localization Intranuclear accumulation Accumulation in subset nuclei Exclusionary patterns Pole cell exclusion Dorsal localization Cytoplasmic foci Apical localization Apical enrichment Apical clusters Degraded Degraded partially stage 5 |
| stage 6-7 |
|
Stage 6-7 Expressed Zygotic Blastoderm nuclei Subset blastoderm nuclei Ventral blastoderm nuclei Expression in mesoderm Expression in ectoderm Dorsal blastoderm nuclei Weak expression (>41ms exp) Localized Subcellular localization patterns Nuclei-associated localization Intranuclear accumulation Accumulation in subset nuclei Embryonic localization patterns Ventral localization |
| stage 8-9 |
|
Stage 8-9 Expressed Zygotic Blastoderm nuclei Subset blastoderm nuclei Ventral blastoderm nuclei Expression in neuroblasts Expression in mesoderm Anterior blastoderm nuclei Weak expression (>41ms exp) Localized Subcellular localization patterns Perinuclear localization Perinuclear subset of nuclei Nuclei-associated localization Intranuclear accumulation Accumulation in subset nuclei Cytoplasmic foci |
| stage 10-17 |
|
Stage 10-17 Expressed Zygotic Sensory system Salivary glands Head Blastoderm nuclei |
Larva
| Area | Images | Terms |
|---|
Adult
| Area | Images | Terms |
|---|
Comments
| Low probe on gel Nice in situ! |
Probe CR46003-RC Links: Permalink
Genes: CR46003
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 Dorsal blastoderm nuclei Localized Subcellular localization patterns Ventral localization Nuclei-associated localization Perinuclear localization Perinuclear subset of nuclei Perinuclear around blastoderm nuclei Intranuclear accumulation Accumulation nuclear subregion Accumulation in subset nuclei Dorsal localization Cytoplasmic foci Basal localization |
| stage 6-7 |
|
Stage 6-7 Expressed Zygotic Blastoderm nuclei Subset blastoderm nuclei Ventral blastoderm nuclei Expression in ectoderm Dorsal blastoderm nuclei Localized Subcellular localization patterns Cytoplasmic foci Embryonic localization patterns Ventral localization Dorsal localization Degraded Degraded partially stage 7 |
| stage 8-9 |
|
Stage 8-9 Expressed Zygotic Blastoderm nuclei Subset blastoderm nuclei Ventral blastoderm nuclei Expression in ectoderm Localized Subcellular localization patterns Nuclei-associated localization Cytoplasmic foci Embryonic localization patterns Ventral localization Degraded Degraded partially stage 8 Degraded completely stage 9 |
| stage 10-17 |
|
Stage 10-17 Expressed Zygotic Segmented pattern Neuroblasts Polarized Neuroblasts Head Head epidermis Ectoderm Polarized Ectoderm CNS Ventral nerve cord Perinuclear VNC Nuclear - VNC Foci - VNC Polarized CNS Brain Localized Subcellular localization patterns Perinuclear localization Perinuclear around CNS nuclei Nuclei-associated localization Nuclear in CNS Foci Small Foci Small Foci in CNS Small Foci in Brain Basal enrichment Basal (outside) in CNS Basal (outside) in brain |
Larva
| Area | Images | Terms |
|---|
Adult
| Area | Images | Terms |
|---|
Comments
| -performed via HCR-FISH using 3 probe sets targeting the RC isoform transcript |
| -the gene is a lncRNA with quite interesting patterns in the CNS (brain and VNC) |
| -seems to be expressed in the anterior transverse furrow, shown in stage 6-7 images |
Probe CR46452-RA Links: Permalink
Genes: CR46452
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 Segmented pattern Pair-rule pattern Dorsal blastoderm nuclei Ubiquitous Localized Subcellular localization patterns Ventral localization Nuclei-associated localization Perinuclear localization Perinuclear subset of nuclei Exclusionary patterns Pole cell exclusion Apical exclusion Dorsal localization Cytoplasmic foci Basal localization Basal enrichment |
| stage 6-7 |
|
Stage 6-7 Expressed Zygotic Blastoderm nuclei Subset blastoderm nuclei Ventral blastoderm nuclei Segmented pattern Pair-rule pattern Ubiquitous Localized Subcellular localization patterns Nuclei-associated localization Perinuclear localization Perinuclear subset of nuclei Perinuclear around blastoderm nuclei Cytoplasmic foci Embryonic localization patterns Ventral localization Degraded Degraded partially stage 6 |
| stage 8-9 |
|
Stage 8-9 Expressed Zygotic Blastoderm nuclei Subset blastoderm nuclei Segmented pattern Pair-rule pattern Expression in mesoderm Expression in ectoderm Localized Subcellular localization patterns Cytoplasmic foci Embryonic localization patterns Germ band localization Degraded Degraded partially stage 8 Degraded completely 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 isoform transcript |
| -interesting 7-stripe pattern observed in the blastoderm/epidermis |
Embryo
| Area | Images | Terms |
|---|---|---|
| stage 1-3 |
|
Stage 1-3 Expressed Weak expression (>41ms exp) Ubiquitous Maternal |
| stage 4-5 |
|
Stage 4-5 Expressed Zygotic Blastoderm nuclei Subset blastoderm nuclei Segmented pattern Localized Subcellular localization patterns Dorsal localization Basal localization |
| stage 6-7 |
|
Stage 6-7 Expressed Zygotic Blastoderm nuclei Subset blastoderm nuclei Segmented pattern Expression in ectoderm Localized Embryonic localization patterns Dorsal localization |
| stage 8-9 |
|
Stage 8-9 Expressed Zygotic Blastoderm nuclei Subset blastoderm nuclei Segmented pattern Expression in ectoderm Localized Embryonic localization patterns Dorsal localization Anterior localization |
| stage 10-17 |
|
Stage 10-17 Expressed Zygotic Sensory system Head Head epidermis Ectoderm CNS Ventral nerve cord Polarized VNC Brain |
Larva
| Area | Images | Terms |
|---|
Adult
| Area | Images | Terms |
|---|
Comments
| -performed via HCR-FISH using 3 probe sets targeting common exons |
| -Lateral and ventral spots in the epidermis of late stage samples are likely imaginal discs |
Embryo
| Area | Images | Terms |
|---|---|---|
| stage 1-3 |
|
Stage 1-3 Expressed Weak expression (>41ms exp) Ubiquitous Maternal |
| stage 4-5 |
|
Stage 4-5 Expressed Zygotic Blastoderm nuclei Subset blastoderm nuclei Ventral blastoderm nuclei Dorsal blastoderm nuclei Anterior blastoderm nuclei Weak expression (>41ms exp) Localized Subcellular localization patterns Ventral localization Other subcellular pattern Nuclei-associated localization Perinuclear localization Perinuclear subset of nuclei Perinuclear around blastoderm nuclei Intranuclear accumulation Accumulation nuclear subregion Exclusionary patterns Pole cell exclusion Dorsal localization Cell division apparatus Other cell division pattern Basal localization Basal enrichment Apical localization Apical enrichment Diffuse apical localization Embryonic localization patterns |
| stage 6-7 |
|
Stage 6-7 Expressed Weak expression (>41ms exp) Localized Subcellular localization patterns Other subcellular pattern Nuclei-associated localization Perinuclear localization Perinuclear subset of nuclei Perinuclear around blastoderm nuclei Intranuclear accumulation Accumulation nuclear subregion Exclusionary patterns Cell division apparatus Apical localization Apical enrichment Discrete apical foci Apical clusters Embryonic localization patterns Ventral localization Exclusionary patterns Pole cell exclusion Dorsal localization |
| stage 8-9 |
|
Stage 8-9 Expressed Zygotic Blastoderm nuclei Subset blastoderm nuclei Expression in neuroblasts Expression in amnioserosa Weak expression (>41ms exp) Localized Subcellular localization patterns Perinuclear localization Nuclei-associated localization Cytoplasmic foci Apical localization Apical enrichment Diffuse apical localization Apical Localization Neuroblasts Embryonic localization patterns Ventral localization Dorsal localization |
| stage 10-17 |
|
Stage 10-17 Expressed Zygotic PNS Fat body Fat body- specific region Fat body polarized Dorsal vessel Dorsal vessel specific pattern CNS Ventral nerve cord Polarized VNC Perinuclear VNC Polarized CNS Brain Blastoderm nuclei Amnioserosa Localized Subcellular localization patterns Perinuclear localization Perinuclear polarized Perinuclear around fat body nuclei Perinuclear around CNS nuclei Membrane associated Foci Small Foci Small Foci in fat body Small Foci in dorsal vessel |
Larva
| Area | Images | Terms |
|---|
Adult
| Area | Images | Terms |
|---|
Comments
Embryo
| Area | Images | Terms |
|---|---|---|
| stage 1-3 |
|
Stage 1-3 Expressed Ubiquitous Maternal |
| stage 4-5 |
|
Stage 4-5 Expressed Zygotic Blastoderm nuclei Subset blastoderm nuclei Segmented pattern Pair-rule pattern Localized Subcellular localization patterns Ventral localization Posterior localization Dorsal localization Anterior localization |
| stage 6-7 |
|
Stage 6-7 Expressed Zygotic Blastoderm nuclei Subset blastoderm nuclei Segmented pattern Pair-rule pattern Localized Posterior localization Embryonic localization patterns Ventral localization Dorsal localization Anterior localization |
| stage 8-9 |
|
Stage 8-9 Expressed Zygotic Blastoderm nuclei Subset blastoderm nuclei Segmented pattern Pair-rule pattern Localized Embryonic localization patterns Ventral localization Posterior localization Dorsal localization Anterior localization |
| stage 10-17 |
|
Stage 10-17 Expressed Zygotic Tracheal system Tracheal pits Posterior spiracles Muscles-embryo Muscles - subregion Maxillary complex Head Head epidermis Ectoderm Brain |
Larva
| Area | Images | Terms |
|---|
Adult
| Area | Images | Terms |
|---|
Comments
| -performed via HCR-FISH using 3 probe sets targeting the RA isoform transcript |
| -There is no entry for this gene on BDGP, and modENCODE RNAseq data on FlyBase indicates that it is not expressed in the embryo. However, we observed obvious patterns during embryogenesis. Additionally, FlyBase does not have any in-depth characterizations of this gene. |
| -Osi21 does not overlap with any other genes, ruling out the possibility of the targeting of alternative transcripts. BLAST also confirms the specificity of our probes to Osi21. Additionally, no other genes for which probes were designed for on this plate show patterns such as those observed here, ruling out the possibility of cross-contamination during probe preparation. |
| -This may be a result of Osi21's poor characterization or incorrect RNAseq data |
Embryo
| Area | Images | Terms |
|---|---|---|
| stage 1-3 |
|
Stage 1-3 Expressed Ubiquitous Maternal |
| stage 4-5 |
|
Stage 4-5 Expressed Zygotic Blastoderm nuclei Subset blastoderm nuclei Segmented pattern Pair-rule pattern Ubiquitous Localized Subcellular localization patterns Ventral localization Dorsal localization Cytoplasmic foci |
| stage 6-7 |
|
Stage 6-7 Expressed Zygotic Blastoderm nuclei Subset blastoderm nuclei Segmented pattern Pair-rule pattern Localized Subcellular localization patterns Cytoplasmic foci Embryonic localization patterns Ventral localization Dorsal localization |
| stage 8-9 |
|
Stage 8-9 Expressed Zygotic Blastoderm nuclei Subset blastoderm nuclei Segmented pattern Pair-rule pattern Expression in ectoderm Localized Subcellular localization patterns Cytoplasmic foci Embryonic localization patterns Ventral localization Dorsal localization |
| stage 10-17 |
|
Stage 10-17 Expressed Zygotic Sensory system Head Head epidermis Ectoderm CNS Ventral nerve cord Foci - VNC Brain Localized Subcellular localization patterns Foci Small Foci Small Foci in CNS Small Foci in Brain |
Larva
| Area | Images | Terms |
|---|
Adult
| Area | Images | Terms |
|---|
Comments
| -performed via HCR-FISH using 3 probe sets targeting the RA isoform transcript |
Embryo
| Area | Images | Terms |
|---|---|---|
| stage 1-3 |
|
Stage 1-3 Expressed Ubiquitous Maternal |
| stage 4-5 |
|
Stage 4-5 Expressed Zygotic Blastoderm nuclei Subset blastoderm nuclei Segmented pattern Pair-rule pattern Localized Subcellular localization patterns Ventral localization Posterior localization Dorsal localization Anterior localization |
| stage 6-7 |
|
Stage 6-7 Expressed Zygotic Blastoderm nuclei Subset blastoderm nuclei Segmented pattern Pair-rule pattern Localized Posterior localization Embryonic localization patterns Ventral localization Dorsal localization Anterior localization |
| stage 8-9 |
|
Stage 8-9 Expressed Zygotic Blastoderm nuclei Subset blastoderm nuclei Segmented pattern Pair-rule pattern Localized Embryonic localization patterns Ventral localization Posterior localization Germ band localization Dorsal localization Anterior localization |
| stage 10-17 |
|
Stage 10-17 Expressed Zygotic Sensory system Head Head epidermis Ectoderm |
Larva
| Area | Images | Terms |
|---|
Adult
| Area | Images | Terms |
|---|
Comments
| -performed via HCR-FISH using 3 probe sets targeting the RA isoform transcript |
Embryo
| Area | Images | Terms |
|---|---|---|
| stage 1-3 |
|
Stage 1-3 Expressed Zygotic Zygotic starting stage 3 Cortical nuclei Subset cortical nuclei Segmented pattern Terminal-gene pattern Posterior cortical nuclei Anterior cortical nuclei Weak expression (>41ms exp) Maternal Localized Embryonic localization patterns Exclusionary patterns Yolk cortex exclusion Pole plasm excluded |
| stage 4-5 |
|
Stage 4-5 Expressed Weak expression (>41ms exp) Localized Subcellular localization patterns Posterior localization Exclusionary patterns Pole cell exclusion Dorsal localization Apical localization Apical enrichment Diffuse apical localization Anterior localization Embryonic localization patterns |
| stage 6-7 |
|
Stage 6-7 Expressed Zygotic Blastoderm nuclei Subset blastoderm nuclei Ventral blastoderm nuclei Expression in mesoderm Weak expression (>41ms exp) Localized Subcellular localization patterns Other subcellular pattern Nuclei-associated localization Perinuclear localization Perinuclear subset of nuclei Perinuclear around blastoderm nuclei |
| stage 8-9 |
|
Stage 8-9 Expressed Localized Subcellular localization patterns Perinuclear localization Perinuclear subset of nuclei Perinuclear around blastoderm nuclei Other subcellular pattern Nuclei-associated localization Cell junction associated Apical localization Apical enrichment Apical Localization Neuroblasts |
| stage 10-17 |
|
Stage 10-17 Expressed Zygotic Salivary glands Proventriculus |
Larva
| Area | Images | Terms |
|---|---|---|
| fat body |
|
3rd Instar Larval Tissues Fat body Subcellular Localization - Fat body Cytoplasmic foci-fat body Expressed in fat body Fat body allover - Ubiquitous |
| intestine |
|
3rd Instar Larval Tissues Intestine Not expressed in the intestine |
| imaginal discs |
|
3rd Instar Larval Tissues Imaginal discs Not expressed in imaginal discs |
| nervous system |
|
3rd Instar Larval Tissues Nervous system Not expressed in nervous system |
| salivary gland |
|
3rd Instar Larval Tissues Salivary gland Not expressed in salivary glands |
| lymph glands and ring glands |
|
3rd Instar Larval Tissues Lymph Glands and Ring Glands Ring gland Lymph Glands Not expressed in lymph glands |
Adult
| Area | Images | Terms |
|---|
Comments
| Degrades. |
| Very interesting. |
| Perinuclear around neuroblasts. |
| Anterior dorsal and posterior dorsal enriched and apically enriched on these cells as well. |
| Good probe on gel. Amazing in situ. |
Embryo
| Area | Images | Terms |
|---|---|---|
| stage 1-3 |
|
Stage 1-3 Expressed Zygotic Zygotic starting stage 3 Cortical nuclei All cortical nuclei Weak expression (>41ms exp) Localized Subcellular localization patterns Cell division apparatus Spindle midzone localization Other cell division pattern Embryonic localization patterns Exclusionary patterns Pole plasm excluded |
| stage 4-5 |
|
Stage 4-5 Expressed Zygotic Yolk nuclei Subset yolk nuclei Random yolk nuclei Blastoderm nuclei Subset blastoderm nuclei Dorsal blastoderm nuclei All blastoderm nuclei Weak expression (>41ms exp) Localized Subcellular localization patterns Other subcellular pattern Exclusionary patterns Pole cell exclusion Dorsal localization Cell division apparatus Spindle midzone localization Apical localization Apical enrichment Diffuse apical localization Embryonic localization patterns |
| stage 6-7 |
|
Stage 6-7 Expressed Zygotic Blastoderm nuclei Subset blastoderm nuclei Dorsal blastoderm nuclei Weak expression (>41ms exp) Localized Subcellular localization patterns Exclusionary patterns Yolk cortex exclusion Cytoplasmic foci Apical localization Apical enrichment Diffuse apical localization Pole cell localization Embryonic localization patterns Exclusionary patterns Pole cell exclusion Dorsal localization |
| stage 8-9 |
|
Stage 8-9 Expressed Zygotic Blastoderm nuclei Subset blastoderm nuclei Expression in API Expression in amnioserosa Weak expression (>41ms exp) Localized Subcellular localization patterns Apical localization Apical enrichment Diffuse apical localization Embryonic localization patterns |
| stage 10-17 |
|
Stage 10-17 Expressed Zygotic Salivary glands PNS Hindgut Ectoderm Blastoderm nuclei Localized |
Larva
| Area | Images | Terms |
|---|
Adult
| Area | Images | Terms |
|---|
Comments
| Good probe on gel. |
Embryo
| Area | Images | Terms |
|---|---|---|
| stage 1-3 |
|
Stage 1-3 Non-Expressed Expressed Ubiquitous |
| stage 4-5 |
|
Stage 4-5 Expressed Zygotic Zygotic starting stage 5 Blastoderm nuclei Subset blastoderm nuclei Segmented pattern Pair-rule pattern Localized Subcellular localization patterns Ventral localization Dorsal localization Cytoplasmic foci |
| stage 6-7 |
|
Stage 6-7 Expressed Zygotic Blastoderm nuclei Subset blastoderm nuclei Segmented pattern Pair-rule pattern Localized Embryonic localization patterns Ventral localization Dorsal localization |
| stage 8-9 |
|
Stage 8-9 Expressed Zygotic Blastoderm nuclei Subset blastoderm nuclei Segmented pattern Pair-rule pattern Localized Embryonic localization patterns Ventral localization Germ band localization Dorsal localization |
| stage 10-17 |
|
Stage 10-17 Expressed Zygotic Sensory system Segmented pattern Hindgut Ectoderm Polarized Ectoderm CNS Ventral nerve cord Polarized VNC Brain |
Larva
| Area | Images | Terms |
|---|
Adult
| Area | Images | Terms |
|---|
Comments
| -performed via HCR-FISH using 3 probe sets targeting the RA isoform transcript |
Embryo
| Area | Images | Terms |
|---|---|---|
| stage 1-3 |
|
Stage 1-3 Non-Expressed |
| stage 4-5 |
|
Stage 4-5 Expressed Zygotic Yolk nuclei Blastoderm nuclei Subset blastoderm nuclei Segmented pattern Pair-rule pattern Localized Subcellular localization patterns Dorsal localization |
| stage 6-7 |
|
Stage 6-7 Expressed Zygotic Blastoderm nuclei Subset blastoderm nuclei Segmented pattern Pair-rule pattern Expression in ectoderm Expression in API Localized Embryonic localization patterns Ventral localization Dorsal localization |
| stage 8-9 |
|
Stage 8-9 Expressed Zygotic Blastoderm nuclei Subset blastoderm nuclei Segmented pattern Pair-rule pattern Expression in ectoderm Expression in API Localized Embryonic localization patterns Ventral localization Germ band localization Dorsal localization |
| stage 10-17 |
|
Stage 10-17 Expressed Zygotic Sensory system Midgut Head Head epidermis Ectoderm CNS Ventral nerve cord Foci - VNC Axons Brain |
Larva
| Area | Images | Terms |
|---|
Adult
| Area | Images | Terms |
|---|
Comments
| -performed via HCR-FISH using 3 probe sets targeting the RA isoform transcript |
| -Most signals in the late stages are likely imaginal discs |
| -6 "ring"-like structures on the anterior ventral side are likely the leg discs -2 circles above leg discs on each side are likely wing discs -Band posterior to the VNC is likely the genital disc -small dots located on the late stage midgut may be intestinal stem cells (ISCs) |
| -Other signals in late stages likely correspond to imaginal discs which we cannot identify based on our resolution |
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 Zygotic Zygotic starting stage 4 Blastoderm nuclei Subset blastoderm nuclei Segmented pattern Terminal-gene pattern Posterior blastoderm nuclei Dorsal blastoderm nuclei Anterior blastoderm nuclei Medium expression (21-40ms exp) Maternal Localized Subcellular localization patterns Posterior localization Membrane associated Exclusionary patterns Pole cell exclusion Dorsal localization Anterior localization Embryonic localization patterns |
| stage 6-7 |
|
Stage 6-7 Expressed Weak expression (>41ms exp) Localized Subcellular localization patterns Exclusionary patterns Embryonic localization patterns Exclusionary patterns Pole cell exclusion |
| stage 8-9 |
|
Stage 8-9 Expressed Zygotic Blastoderm nuclei Subset blastoderm nuclei Random blastoderm nuclei |
| stage 10-17 |
|
Stage 10-17 Expressed Zygotic Tracheal system Specific tracheal branches Dorsal trunk Salivary glands Salivary glands lumen Posterior spiracles PNS Ectoderm Dorsal vessel Dorsal vessel specific pattern CNS Ventral nerve cord Brain Blastoderm nuclei Localized Subcellular localization patterns Foci Small Foci Small Foci in CNS |
Larva
| Area | Images | Terms |
|---|
Adult
| Area | Images | Terms |
|---|
Comments
| Good probe on gel |
| It may be membrane associated... a closer look is required to determine this Interesting zygotic expression. |
Embryo
| Area | Images | Terms |
|---|---|---|
| stage 1-3 |
|
Stage 1-3 Expressed Ubiquitous Maternal |
| stage 4-5 |
|
Stage 4-5 Expressed Zygotic Blastoderm nuclei Subset blastoderm nuclei Segmented pattern Gap-gene pattern Strong expression (1-20ms exp) Localized Subcellular localization patterns Yolk plasm localization Ventral localization Dorsal localization Cytoplasmic foci Anterior localization |
| stage 6-7 |
|
Stage 6-7 Expressed Zygotic Blastoderm nuclei Subset blastoderm nuclei Segmented pattern Gap-gene pattern Expression in ectoderm Strong expression (1-20ms exp) Localized Subcellular localization patterns Cytoplasmic foci Embryonic localization patterns Ventral localization Anterior localization |
| stage 8-9 |
|
Stage 8-9 Expressed Zygotic Blastoderm nuclei Subset blastoderm nuclei Expression in ectoderm Strong expression (1-20ms exp) Localized Subcellular localization patterns Cytoplasmic foci Embryonic localization patterns Germ band localization Anterior localization |
| stage 10-17 |
|
Stage 10-17 Expressed Zygotic Hindgut Specific hindgut area or cells Head Head epidermis Ectoderm Anal pad Ring around anal pad Strong expression (1-20ms exp) |
Larva
| Area | Images | Terms |
|---|
Adult
| Area | Images | Terms |
|---|
Comments
| -performed via HCR-FISH using 3 probe sets targeting common exons |
Embryo
| Area | Images | Terms |
|---|---|---|
| stage 1-3 |
|
Stage 1-3 Expressed Maternal |
| stage 4-5 |
|
Stage 4-5 Expressed Zygotic Blastoderm nuclei Subset blastoderm nuclei Segmented pattern Pair-rule pattern Strong expression (1-20ms exp) Localized Subcellular localization patterns Ventral localization Exclusionary patterns Pole cell exclusion Dorsal localization |
| stage 6-7 |
|
Stage 6-7 Expressed Zygotic Blastoderm nuclei Subset blastoderm nuclei Ventral blastoderm nuclei Segmented pattern Pair-rule pattern Expression in ectoderm Strong expression (1-20ms exp) Localized Embryonic localization patterns Ventral localization Exclusionary patterns Pole cell exclusion Dorsal localization |
| stage 8-9 |
|
Stage 8-9 Expressed Zygotic Blastoderm nuclei Subset blastoderm nuclei Segmented pattern Pair-rule pattern Strong expression (1-20ms exp) Localized Embryonic localization patterns Ventral localization Germ band localization |
| stage 10-17 |
|
Stage 10-17 Expressed Zygotic Tracheal system Tracheal pits Segmented pattern PNS Optic lobes primordium Head Head epidermis Ectoderm CNS Brain Strong expression (1-20ms exp) |
Larva
| Area | Images | Terms |
|---|
Adult
| Area | Images | Terms |
|---|
Comments
| -performed via HCR-FISH using 3 probe sets targeting the RA isoform transcript |
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 Single stripe Segmented pattern Segment polarity pattern Pair-rule pattern Dorsal blastoderm nuclei Anterior blastoderm nuclei Localized Subcellular localization patterns Ventral localization Nuclei-associated localization Intranuclear accumulation Accumulation in subset nuclei Dorsal localization Cytoplasmic foci Apical localization Apical enrichment |
| stage 6-7 |
|
Stage 6-7 Expressed Zygotic Blastoderm nuclei Subset blastoderm nuclei Ventral blastoderm nuclei Segmented pattern Segment polarity pattern Posterior blastoderm nuclei Expression in ectoderm Dorsal blastoderm nuclei Localized Subcellular localization patterns Cytoplasmic foci Apical localization Apical enrichment Posterior localization Embryonic localization patterns Ventral localization Dorsal localization Degraded Degraded partially stage 7 |
| stage 8-9 |
|
Stage 8-9 Expressed Zygotic Zygotic starting stage 9 Zygotic starting stage 8 Blastoderm nuclei Subset blastoderm nuclei Ventral blastoderm nuclei Segmented pattern Segment polarity pattern Expression in ectoderm Dorsal blastoderm nuclei Degraded Degraded partially stage 8 |
| stage 10-17 |
|
Stage 10-17 Expressed Zygotic Sensory system PNS Maxillary complex Head Head epidermis Clypeo-labral bud Localized Subcellular localization patterns Perinuclear localization Perinuclear around PNS nuclei |
Larva
| Area | Images | Terms |
|---|
Adult
| Area | Images | Terms |
|---|
Comments
| -performed via HCR-FISH using 3 probe sets targeting the RA isoform transcript |
| -retested recently for late stage coverage (2025); appears to be expressed in a different program in the gnathal elements and sensory regions in late stages |