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PRJNA438478: RNAseq of wild type zebrafish germline
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Results for pax10+pax6a+pax6b
Z-value: 1.31
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Transcription factors associated with pax10+pax6a+pax6b
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| pax6a | dr11_v1_chr25_-_15049694_15049781 | -0.99 | 4.5e-14 | Click! |
| pax10 | dr11_v1_chr3_+_32553714_32553714 | -0.64 | 4.3e-03 | Click! |
| pax6b | dr11_v1_chr7_+_15872357_15872357 | -0.48 | 4.5e-02 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| chr10_-_8046764 Show fit | 6.31 |
ENSDART00000099031
|
zgc:136254 |
|
| chr10_-_8053385 Show fit | 5.73 |
ENSDART00000142714
|
si:ch211-251f6.7 |
|
| chr25_+_22320738 Show fit | 5.19 |
ENSDART00000073566
|
cytochrome P450, family 11, subfamily A, polypeptide 1 |
|
| chr3_+_43086548 Show fit | 4.99 |
ENSDART00000163579
|
si:dkey-43p13.5 |
|
| chr8_+_52442622 Show fit | 4.82 |
ENSDART00000012758
|
zgc:77112 |
|
| chr10_-_8053753 Show fit | 4.44 |
ENSDART00000162289
|
si:ch211-251f6.7 |
|
| chr8_+_52442785 Show fit | 4.35 |
ENSDART00000189958
|
zgc:77112 |
|
| chr2_+_6255434 Show fit | 3.28 |
ENSDART00000139429
|
zona pellucida glycoprotein 3b |
|
| chr5_+_57924611 Show fit | 3.09 |
ENSDART00000050949
|
B-cell translocation gene 4 |
|
| chr21_-_2322102 Show fit | 2.94 |
ENSDART00000162867
|
zgc:66483 |
Network of associatons between targets according to the STRING database.
First level regulatory network of pax10+pax6a+pax6b
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.4 | 9.2 | GO:0005979 | regulation of glycogen biosynthetic process(GO:0005979) regulation of glucan biosynthetic process(GO:0010962) |
| 1.0 | 5.2 | GO:0006700 | C21-steroid hormone biosynthetic process(GO:0006700) |
| 0.1 | 4.1 | GO:0048484 | enteric nervous system development(GO:0048484) |
| 0.4 | 3.6 | GO:0006659 | phosphatidylserine biosynthetic process(GO:0006659) |
| 0.2 | 3.3 | GO:0060046 | binding of sperm to zona pellucida(GO:0007339) egg coat formation(GO:0035803) regulation of acrosome reaction(GO:0060046) positive regulation of acrosome reaction(GO:2000344) |
| 0.0 | 3.2 | GO:0031098 | stress-activated protein kinase signaling cascade(GO:0031098) |
| 0.1 | 3.1 | GO:0016925 | protein sumoylation(GO:0016925) |
| 0.7 | 2.9 | GO:0060074 | synapse maturation(GO:0060074) |
| 0.1 | 2.8 | GO:0014812 | muscle cell migration(GO:0014812) |
| 0.0 | 2.8 | GO:0008285 | negative regulation of cell proliferation(GO:0008285) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.4 | 16.5 | GO:0000421 | autophagosome membrane(GO:0000421) |
| 0.5 | 9.2 | GO:0000164 | protein phosphatase type 1 complex(GO:0000164) |
| 0.0 | 4.5 | GO:0005730 | nucleolus(GO:0005730) |
| 0.0 | 3.1 | GO:0005743 | mitochondrial inner membrane(GO:0005743) |
| 0.3 | 2.8 | GO:0032783 | ELL-EAF complex(GO:0032783) |
| 0.1 | 2.7 | GO:0005881 | cytoplasmic microtubule(GO:0005881) |
| 0.4 | 2.5 | GO:0000445 | THO complex(GO:0000347) THO complex part of transcription export complex(GO:0000445) |
| 0.2 | 2.4 | GO:0017059 | serine C-palmitoyltransferase complex(GO:0017059) endoplasmic reticulum palmitoyltransferase complex(GO:0031211) |
| 0.0 | 2.4 | GO:0030173 | integral component of Golgi membrane(GO:0030173) intrinsic component of Golgi membrane(GO:0031228) |
| 0.0 | 2.4 | GO:0031234 | extrinsic component of cytoplasmic side of plasma membrane(GO:0031234) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.5 | 16.5 | GO:0032266 | phosphatidylinositol-3-phosphate binding(GO:0032266) |
| 0.6 | 9.2 | GO:2001069 | glycogen binding(GO:2001069) |
| 1.7 | 5.2 | GO:0016713 | 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) |
| 0.2 | 3.7 | GO:0019894 | kinesin binding(GO:0019894) |
| 0.0 | 3.7 | GO:0004197 | cysteine-type endopeptidase activity(GO:0004197) |
| 0.3 | 3.3 | GO:0035804 | structural constituent of egg coat(GO:0035804) |
| 0.0 | 3.2 | GO:0001228 | transcriptional activator activity, RNA polymerase II transcription regulatory region sequence-specific binding(GO:0001228) |
| 0.2 | 3.1 | GO:0061665 | SUMO ligase activity(GO:0061665) |
| 0.5 | 2.8 | GO:0070016 | armadillo repeat domain binding(GO:0070016) |
| 0.2 | 2.5 | GO:0004568 | chitinase activity(GO:0004568) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.2 | 3.1 | PID IL12 STAT4 PATHWAY | IL12 signaling mediated by STAT4 |
| 0.1 | 2.0 | PID PRL SIGNALING EVENTS PATHWAY | Signaling events mediated by PRL |
| 0.0 | 1.9 | PID RHOA REG PATHWAY | Regulation of RhoA activity |
| 0.0 | 1.9 | PID CMYB PATHWAY | C-MYB transcription factor network |
| 0.0 | 1.9 | PID P53 DOWNSTREAM PATHWAY | Direct p53 effectors |
| 0.0 | 1.8 | NABA SECRETED FACTORS | Genes encoding secreted soluble factors |
| 0.1 | 1.3 | PID SMAD2 3PATHWAY | Regulation of cytoplasmic and nuclear SMAD2/3 signaling |
| 0.0 | 1.3 | PID LKB1 PATHWAY | LKB1 signaling events |
| 0.0 | 1.1 | ST TUMOR NECROSIS FACTOR PATHWAY | Tumor Necrosis Factor Pathway. |
| 0.0 | 1.1 | PID RB 1PATHWAY | Regulation of retinoblastoma protein |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.6 | 5.2 | REACTOME ENDOGENOUS STEROLS | Genes involved in Endogenous sterols |
| 0.3 | 2.3 | REACTOME EARLY PHASE OF HIV LIFE CYCLE | Genes involved in Early Phase of HIV Life Cycle |
| 0.1 | 2.3 | REACTOME SMOOTH MUSCLE CONTRACTION | Genes involved in Smooth Muscle Contraction |
| 0.1 | 2.1 | REACTOME CYCLIN A B1 ASSOCIATED EVENTS DURING G2 M TRANSITION | Genes involved in Cyclin A/B1 associated events during G2/M transition |
| 0.0 | 2.1 | REACTOME ANTIGEN PROCESSING UBIQUITINATION PROTEASOME DEGRADATION | Genes involved in Antigen processing: Ubiquitination & Proteasome degradation |
| 0.1 | 2.0 | REACTOME BRANCHED CHAIN AMINO ACID CATABOLISM | Genes involved in Branched-chain amino acid catabolism |
| 0.1 | 2.0 | REACTOME GLYCOLYSIS | Genes involved in Glycolysis |
| 0.1 | 1.9 | REACTOME INTERFERON GAMMA SIGNALING | Genes involved in Interferon gamma signaling |
| 0.0 | 1.9 | REACTOME GLYCEROPHOSPHOLIPID BIOSYNTHESIS | Genes involved in Glycerophospholipid biosynthesis |
| 0.1 | 1.8 | REACTOME ANTIGEN PRESENTATION FOLDING ASSEMBLY AND PEPTIDE LOADING OF CLASS I MHC | Genes involved in Antigen Presentation: Folding, assembly and peptide loading of class I MHC |