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PRJNA438478: RNAseq of wild type zebrafish germline
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Results for foxk1_foxj3
Z-value: 1.03
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Transcription factors associated with foxk1_foxj3
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| foxk1 | dr11_v1_chr3_-_40933415_40933415 | 0.59 | 1.0e-02 | Click! |
| foxj3 | dr11_v1_chr11_-_26362294_26362334 | 0.26 | 2.9e-01 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| chr17_+_21295132 Show fit | 4.12 |
ENSDART00000103845
|
enolase family member 4 |
|
| chr9_+_52411530 Show fit | 3.30 |
ENSDART00000163684
|
NME/NM23 family member 8 |
|
| chr5_+_44944778 Show fit | 3.26 |
ENSDART00000130428
ENSDART00000044361 ENSDART00000128825 ENSDART00000124637 ENSDART00000126066 ENSDART00000177635 |
doublesex and mab-3 related transcription factor 1 |
|
| chr25_+_13662606 Show fit | 3.18 |
ENSDART00000008989
|
coiled-coil domain containing 113 |
|
| chr5_-_54672763 Show fit | 2.80 |
ENSDART00000159009
|
sperm associated antigen 8 |
|
| chr16_-_49646625 Show fit | 2.30 |
ENSDART00000101629
|
EF-hand domain family, member B |
|
| chr1_+_50538839 Show fit | 2.05 |
ENSDART00000020412
|
polycystic kidney disease 2 |
|
| chr10_+_39084354 Show fit | 1.95 |
ENSDART00000158245
|
si:ch73-1a9.3 |
|
| chr14_+_26439227 Show fit | 1.94 |
ENSDART00000054183
|
G protein-coupled receptor 137 |
|
| chr25_-_35360096 Show fit | 1.86 |
ENSDART00000154053
ENSDART00000171917 |
si:ch73-147o17.1 |
Network of associatons between targets according to the STRING database.
First level regulatory network of foxk1_foxj3
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.5 | 4.1 | GO:0032889 | regulation of vacuole fusion, non-autophagic(GO:0032889) |
| 1.1 | 3.3 | GO:0030238 | male sex determination(GO:0030238) |
| 0.2 | 2.7 | GO:0034122 | negative regulation of toll-like receptor signaling pathway(GO:0034122) negative regulation of innate immune response(GO:0045824) |
| 0.7 | 2.1 | GO:0071498 | cellular response to fluid shear stress(GO:0071498) |
| 0.1 | 2.0 | GO:0014812 | muscle cell migration(GO:0014812) |
| 0.6 | 1.9 | GO:1903069 | regulation of ER-associated ubiquitin-dependent protein catabolic process(GO:1903069) |
| 0.4 | 1.6 | GO:0019287 | isopentenyl diphosphate biosynthetic process, mevalonate pathway(GO:0019287) |
| 0.1 | 1.6 | GO:0045851 | vacuolar acidification(GO:0007035) pH reduction(GO:0045851) intracellular pH reduction(GO:0051452) |
| 0.2 | 1.4 | GO:1900044 | negative regulation of histone ubiquitination(GO:0033183) regulation of protein K63-linked ubiquitination(GO:1900044) negative regulation of protein K63-linked ubiquitination(GO:1900045) regulation of histone H2A K63-linked ubiquitination(GO:1901314) negative regulation of histone H2A K63-linked ubiquitination(GO:1901315) regulation of protein polyubiquitination(GO:1902914) negative regulation of protein polyubiquitination(GO:1902915) |
| 0.1 | 1.4 | GO:0006285 | base-excision repair, AP site formation(GO:0006285) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.5 | 4.1 | GO:0000015 | phosphopyruvate hydratase complex(GO:0000015) |
| 0.3 | 3.2 | GO:0034451 | centriolar satellite(GO:0034451) |
| 0.4 | 2.7 | GO:0042612 | MHC class I protein complex(GO:0042612) |
| 0.1 | 2.1 | GO:0016328 | lateral plasma membrane(GO:0016328) |
| 0.0 | 2.1 | GO:0005814 | centriole(GO:0005814) |
| 0.2 | 2.0 | GO:0032783 | ELL-EAF complex(GO:0032783) |
| 0.0 | 1.9 | GO:0031225 | anchored component of membrane(GO:0031225) |
| 0.2 | 1.8 | GO:0001669 | acrosomal vesicle(GO:0001669) |
| 0.1 | 1.7 | GO:0042555 | MCM complex(GO:0042555) |
| 0.2 | 1.6 | GO:0000220 | vacuolar proton-transporting V-type ATPase, V0 domain(GO:0000220) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.5 | 4.1 | GO:0004634 | phosphopyruvate hydratase activity(GO:0004634) |
| 0.1 | 2.1 | GO:0015271 | outward rectifier potassium channel activity(GO:0015271) |
| 0.3 | 2.0 | GO:0070016 | armadillo repeat domain binding(GO:0070016) |
| 0.1 | 2.0 | GO:0031492 | nucleosomal DNA binding(GO:0031492) |
| 0.1 | 1.6 | GO:0051117 | ATPase binding(GO:0051117) |
| 0.0 | 1.6 | GO:0016776 | phosphotransferase activity, phosphate group as acceptor(GO:0016776) |
| 0.2 | 1.5 | GO:0000700 | mismatch base pair DNA N-glycosylase activity(GO:0000700) pyrimidine-specific mismatch base pair DNA N-glycosylase activity(GO:0008263) |
| 0.3 | 1.4 | GO:0019784 | NEDD8-specific protease activity(GO:0019784) |
| 0.0 | 1.3 | GO:0061631 | ubiquitin conjugating enzyme activity(GO:0061631) |
| 0.1 | 1.2 | GO:0005052 | peroxisome matrix targeting signal-1 binding(GO:0005052) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 2.7 | PID CD8 TCR DOWNSTREAM PATHWAY | Downstream signaling in naïve CD8+ T cells |
| 0.1 | 1.8 | ST WNT BETA CATENIN PATHWAY | Wnt/beta-catenin Pathway |
| 0.0 | 1.3 | PID P38 ALPHA BETA DOWNSTREAM PATHWAY | Signaling mediated by p38-alpha and p38-beta |
| 0.0 | 1.0 | PID P53 DOWNSTREAM PATHWAY | Direct p53 effectors |
| 0.0 | 0.7 | PID RETINOIC ACID PATHWAY | Retinoic acid receptors-mediated signaling |
| 0.0 | 0.7 | PID ATR PATHWAY | ATR signaling pathway |
| 0.1 | 0.6 | ST TYPE I INTERFERON PATHWAY | Type I Interferon (alpha/beta IFN) Pathway |
| 0.0 | 0.6 | ST MYOCYTE AD PATHWAY | Myocyte Adrenergic Pathway is a specific case of the generalized Adrenergic Pathway. |
| 0.0 | 0.6 | PID P75 NTR PATHWAY | p75(NTR)-mediated signaling |
| 0.0 | 0.6 | PID BETA CATENIN NUC PATHWAY | Regulation of nuclear beta catenin signaling and target gene transcription |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.5 | 2.7 | REACTOME ENDOSOMAL VACUOLAR PATHWAY | Genes involved in Endosomal/Vacuolar pathway |
| 0.1 | 1.7 | REACTOME UNWINDING OF DNA | Genes involved in Unwinding of DNA |
| 0.1 | 1.6 | REACTOME SYNTHESIS OF PC | Genes involved in Synthesis of PC |
| 0.1 | 1.2 | REACTOME MEMBRANE BINDING AND TARGETTING OF GAG PROTEINS | Genes involved in Membrane binding and targetting of GAG proteins |
| 0.0 | 1.1 | REACTOME CHOLESTEROL BIOSYNTHESIS | Genes involved in Cholesterol biosynthesis |
| 0.1 | 0.9 | REACTOME TRAFFICKING AND PROCESSING OF ENDOSOMAL TLR | Genes involved in Trafficking and processing of endosomal TLR |
| 0.0 | 0.7 | REACTOME YAP1 AND WWTR1 TAZ STIMULATED GENE EXPRESSION | Genes involved in YAP1- and WWTR1 (TAZ)-stimulated gene expression |
| 0.1 | 0.6 | REACTOME REGULATION OF IFNA SIGNALING | Genes involved in Regulation of IFNA signaling |
| 0.0 | 0.6 | REACTOME RNA POL I PROMOTER OPENING | Genes involved in RNA Polymerase I Promoter Opening |
| 0.0 | 0.6 | REACTOME LOSS OF NLP FROM MITOTIC CENTROSOMES | Genes involved in Loss of Nlp from mitotic centrosomes |