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PRJNA438478: RNAseq of wild type zebrafish germline
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Results for si:dkey-43p13.5+uncx
Z-value: 0.26
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Transcription factors associated with si:dkey-43p13.5+uncx
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| si:dkey-43p13.5 | dr11_v1_chr3_+_43086548_43086548 | 0.92 | 9.1e-08 | Click! |
| uncx | dr11_v1_chr3_-_43356082_43356082 | 0.09 | 7.3e-01 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| chr21_+_25777425 Show fit | 1.35 |
ENSDART00000021620
|
claudin d |
|
| chr11_-_6452444 Show fit | 1.33 |
ENSDART00000137879
ENSDART00000134957 ENSDART00000004483 |
La ribonucleoprotein domain family, member 6b |
|
| chr10_-_21362071 Show fit | 0.99 |
ENSDART00000125167
|
avidin |
|
| chr9_+_8396755 Show fit | 0.92 |
ENSDART00000043067
|
zgc:171776 |
|
| chr10_-_21362320 Show fit | 0.92 |
ENSDART00000189789
|
avidin |
|
| chr8_+_45334255 Show fit | 0.88 |
ENSDART00000126848
ENSDART00000134161 ENSDART00000142322 ENSDART00000145011 ENSDART00000183560 |
poly(A) binding protein, cytoplasmic 1-like |
|
| chr10_-_8053753 Show fit | 0.87 |
ENSDART00000162289
|
si:ch211-251f6.7 |
|
| chr24_-_2450597 Show fit | 0.82 |
ENSDART00000188080
ENSDART00000093331 |
ras responsive element binding protein 1a |
|
| chr16_+_29509133 Show fit | 0.82 |
ENSDART00000112116
|
cathepsin S, ortholog2, tandem duplicate 1 |
|
| chr1_-_55248496 Show fit | 0.80 |
ENSDART00000098615
|
nanos homolog 3 |
Network of associatons between targets according to the STRING database.
First level regulatory network of si:dkey-43p13.5+uncx
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.4 | 1.9 | GO:0016338 | calcium-independent cell-cell adhesion via plasma membrane cell-adhesion molecules(GO:0016338) |
| 0.0 | 1.4 | GO:0018198 | peptidyl-cysteine modification(GO:0018198) |
| 0.1 | 1.0 | GO:0006607 | NLS-bearing protein import into nucleus(GO:0006607) |
| 0.0 | 0.9 | GO:1904029 | regulation of cyclin-dependent protein serine/threonine kinase activity(GO:0000079) regulation of cyclin-dependent protein kinase activity(GO:1904029) |
| 0.3 | 0.8 | GO:0072111 | spinal cord anterior/posterior patterning(GO:0021512) cell proliferation involved in pronephros development(GO:0039015) cell proliferation involved in kidney development(GO:0072111) |
| 0.2 | 0.8 | GO:0030718 | germ-line stem cell population maintenance(GO:0030718) |
| 0.1 | 0.8 | GO:0006622 | protein targeting to lysosome(GO:0006622) |
| 0.1 | 0.8 | GO:0000002 | mitochondrial genome maintenance(GO:0000002) |
| 0.0 | 0.8 | GO:0007339 | 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 | 0.8 | GO:0044744 | protein import into nucleus(GO:0006606) protein targeting to nucleus(GO:0044744) single-organism nuclear import(GO:1902593) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 2.5 | GO:0070160 | bicellular tight junction(GO:0005923) occluding junction(GO:0070160) |
| 0.1 | 1.8 | GO:0000421 | autophagosome membrane(GO:0000421) |
| 0.4 | 1.3 | GO:0097124 | cyclin A2-CDK2 complex(GO:0097124) |
| 0.0 | 1.0 | GO:0010494 | cytoplasmic stress granule(GO:0010494) |
| 0.0 | 1.0 | GO:0005657 | replication fork(GO:0005657) |
| 0.3 | 0.8 | GO:0031166 | integral component of vacuolar membrane(GO:0031166) intrinsic component of vacuolar membrane(GO:0031310) |
| 0.3 | 0.8 | GO:0097189 | apoptotic body(GO:0097189) |
| 0.0 | 0.7 | GO:0030667 | secretory granule membrane(GO:0030667) |
| 0.0 | 0.6 | GO:0005876 | spindle microtubule(GO:0005876) |
| 0.0 | 0.6 | GO:0032580 | Golgi cisterna membrane(GO:0032580) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 2.4 | GO:0042802 | identical protein binding(GO:0042802) |
| 0.4 | 1.9 | GO:0009374 | biotin binding(GO:0009374) |
| 0.1 | 1.4 | GO:0061608 | nuclear import signal receptor activity(GO:0061608) |
| 0.0 | 1.4 | GO:0032266 | phosphatidylinositol-3-phosphate binding(GO:0032266) |
| 0.0 | 1.0 | GO:0019706 | protein-cysteine S-palmitoyltransferase activity(GO:0019706) protein-cysteine S-acyltransferase activity(GO:0019707) |
| 0.1 | 0.9 | GO:0008266 | poly(U) RNA binding(GO:0008266) |
| 0.0 | 0.9 | GO:0016538 | cyclin-dependent protein serine/threonine kinase regulator activity(GO:0016538) |
| 0.2 | 0.8 | GO:0043139 | 5'-3' DNA helicase activity(GO:0043139) |
| 0.0 | 0.8 | GO:0032190 | acrosin binding(GO:0032190) |
| 0.0 | 0.8 | GO:0005109 | frizzled binding(GO:0005109) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 2.1 | NABA SECRETED FACTORS | Genes encoding secreted soluble factors |
| 0.1 | 1.3 | SA REG CASCADE OF CYCLIN EXPR | Expression of cyclins regulates progression through the cell cycle by activating cyclin-dependent kinases. |
| 0.0 | 1.3 | PID TELOMERASE PATHWAY | Regulation of Telomerase |
| 0.0 | 0.8 | NABA PROTEOGLYCANS | Genes encoding proteoglycans |
| 0.0 | 0.6 | ST MYOCYTE AD PATHWAY | Myocyte Adrenergic Pathway is a specific case of the generalized Adrenergic Pathway. |
| 0.0 | 0.4 | PID RANBP2 PATHWAY | Sumoylation by RanBP2 regulates transcriptional repression |
| 0.0 | 0.4 | PID HIF2PATHWAY | HIF-2-alpha transcription factor network |
| 0.0 | 0.3 | PID REELIN PATHWAY | Reelin signaling pathway |
| 0.0 | 0.2 | PID S1P S1P1 PATHWAY | S1P1 pathway |
| 0.0 | 0.2 | SA MMP CYTOKINE CONNECTION | Cytokines can induce activation of matrix metalloproteinases, which degrade extracellular matrix. |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 1.3 | REACTOME CYCLIN A B1 ASSOCIATED EVENTS DURING G2 M TRANSITION | Genes involved in Cyclin A/B1 associated events during G2/M transition |
| 0.0 | 0.7 | REACTOME TRANSPORT TO THE GOLGI AND SUBSEQUENT MODIFICATION | Genes involved in Transport to the Golgi and subsequent modification |
| 0.0 | 0.6 | REACTOME A TETRASACCHARIDE LINKER SEQUENCE IS REQUIRED FOR GAG SYNTHESIS | Genes involved in A tetrasaccharide linker sequence is required for GAG synthesis |
| 0.0 | 0.6 | REACTOME GLUCONEOGENESIS | Genes involved in Gluconeogenesis |
| 0.0 | 0.5 | REACTOME CTNNB1 PHOSPHORYLATION CASCADE | Genes involved in Beta-catenin phosphorylation cascade |
| 0.0 | 0.5 | REACTOME SMAD2 SMAD3 SMAD4 HETEROTRIMER REGULATES TRANSCRIPTION | Genes involved in SMAD2/SMAD3:SMAD4 heterotrimer regulates transcription |
| 0.0 | 0.4 | REACTOME MITOCHONDRIAL FATTY ACID BETA OXIDATION | Genes involved in Mitochondrial Fatty Acid Beta-Oxidation |
| 0.0 | 0.4 | REACTOME APOPTOTIC CLEAVAGE OF CELLULAR PROTEINS | Genes involved in Apoptotic cleavage of cellular proteins |
| 0.0 | 0.4 | REACTOME ACTIVATION OF CHAPERONE GENES BY XBP1S | Genes involved in Activation of Chaperone Genes by XBP1(S) |
| 0.0 | 0.4 | 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 |