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PRJNA438478: RNAseq of wild type zebrafish germline
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Results for foxj1a+foxj1b
Z-value: 1.09
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Transcription factors associated with foxj1a+foxj1b
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| foxj1b | dr11_v1_chr12_+_20149707_20149707 | 0.67 | 2.5e-03 | Click! |
| foxj1a | dr11_v1_chr3_+_60716904_60716904 | 0.66 | 3.0e-03 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| chr16_-_49646625 Show fit | 3.39 |
ENSDART00000101629
|
EF-hand domain family, member B |
|
| chr12_+_17100021 Show fit | 3.14 |
ENSDART00000177923
|
actin, alpha 2, smooth muscle, aorta |
|
| chr5_+_39563301 Show fit | 3.04 |
ENSDART00000131245
ENSDART00000097872 |
si:ch211-57h10.1 |
|
| chr5_-_42661012 Show fit | 2.60 |
ENSDART00000158339
|
Pim proto-oncogene, serine/threonine kinase, related 58 |
|
| chr5_-_54672763 Show fit | 2.54 |
ENSDART00000159009
|
sperm associated antigen 8 |
|
| chr5_+_42400777 Show fit | 2.48 |
ENSDART00000183114
|
|
|
| chr9_+_52411530 Show fit | 2.30 |
ENSDART00000163684
|
NME/NM23 family member 8 |
|
| chr7_+_38395197 Show fit | 2.30 |
ENSDART00000138669
|
centrosomal protein 89 |
|
| chr3_+_55031685 Show fit | 2.29 |
ENSDART00000132587
|
N-methylpurine DNA glycosylase |
|
| chr20_-_13640598 Show fit | 2.28 |
ENSDART00000128823
ENSDART00000103394 |
radial spoke 3 homolog |
Network of associatons between targets according to the STRING database.
First level regulatory network of foxj1a+foxj1b
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 10.5 | GO:0046777 | protein autophosphorylation(GO:0046777) |
| 1.6 | 4.9 | GO:0090131 | mesenchyme migration(GO:0090131) |
| 0.2 | 2.8 | GO:0045824 | negative regulation of toll-like receptor signaling pathway(GO:0034122) negative regulation of innate immune response(GO:0045824) |
| 0.1 | 2.7 | GO:0043967 | histone H4 acetylation(GO:0043967) |
| 0.1 | 2.5 | GO:0006949 | syncytium formation by plasma membrane fusion(GO:0000768) syncytium formation(GO:0006949) |
| 0.1 | 2.4 | GO:0006284 | base-excision repair(GO:0006284) |
| 0.2 | 2.3 | GO:0031998 | regulation of fatty acid beta-oxidation(GO:0031998) |
| 0.0 | 2.2 | GO:0008630 | intrinsic apoptotic signaling pathway in response to DNA damage(GO:0008630) |
| 0.3 | 1.8 | GO:1902915 | 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 | 1.8 | GO:0000027 | ribosomal large subunit assembly(GO:0000027) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.3 | 4.9 | GO:0005869 | dynactin complex(GO:0005869) |
| 0.5 | 2.8 | GO:0042612 | MHC class I protein complex(GO:0042612) |
| 0.3 | 2.7 | GO:0005671 | Ada2/Gcn5/Ada3 transcription activator complex(GO:0005671) |
| 0.0 | 2.4 | GO:0005741 | mitochondrial outer membrane(GO:0005741) |
| 0.1 | 2.3 | GO:0005758 | mitochondrial intermembrane space(GO:0005758) organelle envelope lumen(GO:0031970) |
| 0.0 | 1.6 | GO:0031225 | anchored component of membrane(GO:0031225) |
| 0.2 | 1.5 | GO:0045254 | pyruvate dehydrogenase complex(GO:0045254) |
| 0.5 | 1.4 | GO:0001534 | radial spoke(GO:0001534) |
| 0.0 | 1.4 | GO:0005747 | mitochondrial respiratory chain complex I(GO:0005747) NADH dehydrogenase complex(GO:0030964) respiratory chain complex I(GO:0045271) |
| 0.0 | 1.4 | GO:0030665 | clathrin-coated vesicle membrane(GO:0030665) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.5 | 2.8 | GO:0004719 | protein-L-isoaspartate (D-aspartate) O-methyltransferase activity(GO:0004719) |
| 0.0 | 2.5 | GO:0004402 | histone acetyltransferase activity(GO:0004402) |
| 0.1 | 2.4 | GO:0019104 | DNA N-glycosylase activity(GO:0019104) |
| 0.3 | 2.3 | GO:0016416 | carnitine O-palmitoyltransferase activity(GO:0004095) O-palmitoyltransferase activity(GO:0016416) |
| 0.0 | 2.3 | GO:0003735 | structural constituent of ribosome(GO:0003735) |
| 0.2 | 2.0 | GO:0003691 | double-stranded telomeric DNA binding(GO:0003691) |
| 0.0 | 1.9 | GO:0003724 | RNA helicase activity(GO:0003724) |
| 0.4 | 1.8 | GO:0070004 | cysteine-type exopeptidase activity(GO:0070004) |
| 0.4 | 1.8 | GO:0019784 | NEDD8-specific protease activity(GO:0019784) |
| 0.0 | 1.8 | GO:0008201 | heparin binding(GO:0008201) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 2.9 | PID PDGFRB PATHWAY | PDGFR-beta signaling pathway |
| 0.1 | 2.8 | PID HDAC CLASSIII PATHWAY | Signaling events mediated by HDAC Class III |
| 0.1 | 2.8 | PID CD8 TCR DOWNSTREAM PATHWAY | Downstream signaling in naïve CD8+ T cells |
| 0.1 | 1.1 | PID TCR JNK PATHWAY | JNK signaling in the CD4+ TCR pathway |
| 0.1 | 1.1 | SA REG CASCADE OF CYCLIN EXPR | Expression of cyclins regulates progression through the cell cycle by activating cyclin-dependent kinases. |
| 0.0 | 1.1 | PID MTOR 4PATHWAY | mTOR signaling pathway |
| 0.1 | 0.8 | PID IL5 PATHWAY | IL5-mediated signaling events |
| 0.0 | 0.8 | PID REG GR PATHWAY | Glucocorticoid receptor regulatory network |
| 0.0 | 0.7 | PID HNF3B PATHWAY | FOXA2 and FOXA3 transcription factor networks |
| 0.0 | 0.7 | PID P75 NTR PATHWAY | p75(NTR)-mediated signaling |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 4.7 | REACTOME ANTIGEN PROCESSING UBIQUITINATION PROTEASOME DEGRADATION | Genes involved in Antigen processing: Ubiquitination & Proteasome degradation |
| 0.2 | 3.4 | REACTOME SYNTHESIS OF PC | Genes involved in Synthesis of PC |
| 0.1 | 3.1 | REACTOME SMOOTH MUSCLE CONTRACTION | Genes involved in Smooth Muscle Contraction |
| 0.6 | 2.8 | REACTOME ENDOSOMAL VACUOLAR PATHWAY | Genes involved in Endosomal/Vacuolar pathway |
| 0.2 | 2.4 | REACTOME BASE FREE SUGAR PHOSPHATE REMOVAL VIA THE SINGLE NUCLEOTIDE REPLACEMENT PATHWAY | Genes involved in Base-free sugar-phosphate removal via the single-nucleotide replacement pathway |
| 0.0 | 2.0 | REACTOME SCFSKP2 MEDIATED DEGRADATION OF P27 P21 | Genes involved in SCF(Skp2)-mediated degradation of p27/p21 |
| 0.0 | 1.6 | REACTOME BIOSYNTHESIS OF THE N GLYCAN PRECURSOR DOLICHOL LIPID LINKED OLIGOSACCHARIDE LLO AND TRANSFER TO A NASCENT PROTEIN | Genes involved in Biosynthesis of the N-glycan precursor (dolichol lipid-linked oligosaccharide, LLO) and transfer to a nascent protein |
| 0.1 | 1.4 | REACTOME VITAMIN B5 PANTOTHENATE METABOLISM | Genes involved in Vitamin B5 (pantothenate) metabolism |
| 0.0 | 1.4 | REACTOME RESPIRATORY ELECTRON TRANSPORT | Genes involved in Respiratory electron transport |
| 0.0 | 1.2 | REACTOME PEPTIDE CHAIN ELONGATION | Genes involved in Peptide chain elongation |