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PRJNA438478: RNAseq of wild type zebrafish germline
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Results for emx2+emx3
Z-value: 1.19
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Transcription factors associated with emx2+emx3
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| emx3 | dr11_v1_chr14_-_26377044_26377044 | -0.93 | 3.3e-08 | Click! |
| emx2 | dr11_v1_chr13_+_19322686_19322686 | -0.74 | 4.7e-04 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| chr11_-_6452444 Show fit | 5.59 |
ENSDART00000137879
ENSDART00000134957 ENSDART00000004483 |
La ribonucleoprotein domain family, member 6b |
|
| chr25_+_22320738 Show fit | 4.10 |
ENSDART00000073566
|
cytochrome P450, family 11, subfamily A, polypeptide 1 |
|
| chr8_-_23780334 Show fit | 3.85 |
ENSDART00000145179
ENSDART00000145894 |
zgc:195245 |
|
| chr9_+_54039006 Show fit | 3.71 |
ENSDART00000112441
|
toll-like receptor 7 |
|
| chr1_-_18811517 Show fit | 3.60 |
ENSDART00000142026
|
si:dkey-167i21.2 |
|
| chr23_+_36460239 Show fit | 3.43 |
ENSDART00000172441
|
LIM domain and actin binding 1a |
|
| chr20_+_54299419 Show fit | 3.35 |
ENSDART00000056089
ENSDART00000193107 |
si:zfos-1505d6.3 |
|
| chr20_+_54309148 Show fit | 3.31 |
ENSDART00000099360
|
zona pellucida glycoprotein 2, tandem duplicate 1 |
|
| chr17_-_4245902 Show fit | 3.19 |
ENSDART00000151851
|
growth differentiation factor 3 |
|
| chr4_+_9467049 Show fit | 3.16 |
ENSDART00000012659
|
zgc:55888 |
Network of associatons between targets according to the STRING database.
First level regulatory network of emx2+emx3
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.8 | 4.1 | GO:0006700 | C21-steroid hormone biosynthetic process(GO:0006700) |
| 1.2 | 3.7 | GO:0034154 | toll-like receptor 7 signaling pathway(GO:0034154) |
| 0.0 | 3.7 | GO:0051017 | actin filament bundle assembly(GO:0051017) |
| 0.8 | 3.2 | GO:0006526 | arginine biosynthetic process(GO:0006526) |
| 0.1 | 3.0 | GO:0071218 | response to misfolded protein(GO:0051788) cellular response to misfolded protein(GO:0071218) |
| 0.5 | 2.6 | GO:0038107 | nodal signaling pathway involved in determination of left/right asymmetry(GO:0038107) regulation of nodal signaling pathway involved in determination of left/right asymmetry(GO:1900145) |
| 0.0 | 2.5 | GO:0003146 | heart jogging(GO:0003146) |
| 0.6 | 2.3 | GO:0045041 | positive regulation of interleukin-6 production(GO:0032755) protein import into mitochondrial intermembrane space(GO:0045041) |
| 0.2 | 2.3 | GO:0000915 | assembly of actomyosin apparatus involved in cytokinesis(GO:0000912) actomyosin contractile ring assembly(GO:0000915) actomyosin contractile ring organization(GO:0044837) |
| 0.1 | 2.0 | GO:0050821 | protein stabilization(GO:0050821) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 6.3 | GO:0005759 | mitochondrial matrix(GO:0005759) |
| 0.0 | 5.1 | GO:0005743 | mitochondrial inner membrane(GO:0005743) |
| 0.0 | 3.9 | GO:0005730 | nucleolus(GO:0005730) |
| 0.8 | 2.5 | GO:0097124 | cyclin A2-CDK2 complex(GO:0097124) |
| 0.0 | 2.1 | GO:0005788 | endoplasmic reticulum lumen(GO:0005788) |
| 0.4 | 2.0 | GO:0043625 | delta DNA polymerase complex(GO:0043625) |
| 0.2 | 1.8 | GO:0035060 | brahma complex(GO:0035060) |
| 0.1 | 1.8 | GO:0010494 | cytoplasmic stress granule(GO:0010494) |
| 0.0 | 1.8 | GO:0022627 | cytosolic small ribosomal subunit(GO:0022627) |
| 0.3 | 1.2 | GO:0043540 | 6-phosphofructo-2-kinase/fructose-2,6-biphosphatase complex(GO:0043540) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 1.4 | 4.1 | GO:0008386 | cholesterol monooxygenase (side-chain-cleaving) activity(GO:0008386) oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, reduced iron-sulfur protein as one donor, and incorporation of one atom of oxygen(GO:0016713) |
| 0.1 | 3.7 | GO:0003727 | single-stranded RNA binding(GO:0003727) |
| 0.1 | 3.3 | GO:0003887 | DNA-directed DNA polymerase activity(GO:0003887) |
| 0.0 | 3.2 | GO:0001227 | transcriptional repressor activity, RNA polymerase II transcription regulatory region sequence-specific binding(GO:0001227) |
| 0.1 | 3.1 | GO:0051087 | chaperone binding(GO:0051087) |
| 0.1 | 2.6 | GO:0004683 | calmodulin-dependent protein kinase activity(GO:0004683) |
| 0.8 | 2.5 | GO:0034618 | arginine binding(GO:0034618) |
| 0.0 | 2.5 | GO:0042393 | histone binding(GO:0042393) |
| 0.0 | 2.3 | GO:0005125 | cytokine activity(GO:0005125) |
| 0.0 | 2.1 | GO:0003735 | structural constituent of ribosome(GO:0003735) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.2 | 3.9 | PID PRL SIGNALING EVENTS PATHWAY | Signaling events mediated by PRL |
| 0.1 | 3.1 | PID RHOA REG PATHWAY | Regulation of RhoA activity |
| 0.2 | 2.5 | SA REG CASCADE OF CYCLIN EXPR | Expression of cyclins regulates progression through the cell cycle by activating cyclin-dependent kinases. |
| 0.1 | 2.3 | PID TOLL ENDOGENOUS PATHWAY | Endogenous TLR signaling |
| 0.0 | 2.2 | PID MYC ACTIV PATHWAY | Validated targets of C-MYC transcriptional activation |
| 0.1 | 1.4 | PID DNA PK PATHWAY | DNA-PK pathway in nonhomologous end joining |
| 0.1 | 1.3 | PID ARF 3PATHWAY | Arf1 pathway |
| 0.0 | 1.1 | PID WNT SIGNALING PATHWAY | Wnt signaling network |
| 0.1 | 1.0 | SA G2 AND M PHASES | Cdc25 activates the cdc2/cyclin B complex to induce the G2/M transition. |
| 0.0 | 0.7 | PID BARD1 PATHWAY | BARD1 signaling events |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 5.1 | REACTOME MITOCHONDRIAL PROTEIN IMPORT | Genes involved in Mitochondrial Protein Import |
| 0.5 | 4.1 | REACTOME ENDOGENOUS STEROLS | Genes involved in Endogenous sterols |
| 0.3 | 3.7 | REACTOME TRAFFICKING AND PROCESSING OF ENDOSOMAL TLR | Genes involved in Trafficking and processing of endosomal TLR |
| 0.2 | 3.4 | REACTOME CYCLIN A B1 ASSOCIATED EVENTS DURING G2 M TRANSITION | Genes involved in Cyclin A/B1 associated events during G2/M transition |
| 0.2 | 3.4 | REACTOME N GLYCAN TRIMMING IN THE ER AND CALNEXIN CALRETICULIN CYCLE | Genes involved in N-glycan trimming in the ER and Calnexin/Calreticulin cycle |
| 0.2 | 2.0 | REACTOME REMOVAL OF THE FLAP INTERMEDIATE FROM THE C STRAND | Genes involved in Removal of the Flap Intermediate from the C-strand |
| 0.0 | 1.9 | REACTOME ION TRANSPORT BY P TYPE ATPASES | Genes involved in Ion transport by P-type ATPases |
| 0.1 | 1.5 | REACTOME GLUTATHIONE CONJUGATION | Genes involved in Glutathione conjugation |
| 0.2 | 1.3 | REACTOME TETRAHYDROBIOPTERIN BH4 SYNTHESIS RECYCLING SALVAGE AND REGULATION | Genes involved in Tetrahydrobiopterin (BH4) synthesis, recycling, salvage and regulation |
| 0.0 | 1.3 | REACTOME METABOLISM OF VITAMINS AND COFACTORS | Genes involved in Metabolism of vitamins and cofactors |