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PRJNA438478: RNAseq of wild type zebrafish germline
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Results for hoxc4a
Z-value: 0.38
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Transcription factors associated with hoxc4a
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| hoxc4a | dr11_v1_chr23_+_36130883_36130883 | 0.64 | 3.9e-03 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| chr18_+_7456597 Show fit | 0.84 |
ENSDART00000142270
|
telomere repeat binding bouquet formation protein 1 |
|
| chr10_-_29236860 Show fit | 0.74 |
ENSDART00000111620
|
coiled-coil domain containing 83 |
|
| chr18_+_7456888 Show fit | 0.72 |
ENSDART00000081468
|
telomere repeat binding bouquet formation protein 1 |
|
| chr11_-_2838699 Show fit | 0.66 |
ENSDART00000066189
|
LHFPL tetraspan subfamily member 5a |
|
| chr16_-_42894628 Show fit | 0.64 |
ENSDART00000045600
|
hemochromatosis type 2 |
|
| chr14_-_858985 Show fit | 0.63 |
ENSDART00000148687
ENSDART00000149375 |
solute carrier family 34 (type II sodium/phosphate cotransporter), member 1a |
|
| chr17_+_41992054 Show fit | 0.60 |
ENSDART00000182878
ENSDART00000111537 |
kizuna centrosomal protein |
|
| chr10_-_31015535 Show fit | 0.56 |
ENSDART00000146116
|
pannexin 3 |
|
| chr16_+_23431189 Show fit | 0.48 |
ENSDART00000004679
|
ictacalcin |
|
| chr12_-_35830625 Show fit | 0.46 |
ENSDART00000180028
|
|
Network of associatons between targets according to the STRING database.
First level regulatory network of hoxc4a
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.5 | 1.6 | GO:0034397 | telomere localization(GO:0034397) telomere tethering at nuclear periphery(GO:0034398) meiotic telomere tethering at nuclear periphery(GO:0044821) meiotic telomere clustering(GO:0045141) meiotic attachment of telomere to nuclear envelope(GO:0070197) chromosome localization to nuclear envelope involved in homologous chromosome segregation(GO:0090220) chromosome attachment to the nuclear envelope(GO:0097240) |
| 0.0 | 0.7 | GO:0060122 | inner ear receptor stereocilium organization(GO:0060122) |
| 0.1 | 0.6 | GO:0044341 | sodium-dependent phosphate transport(GO:0044341) |
| 0.1 | 0.6 | GO:0032732 | positive regulation of interleukin-1 production(GO:0032732) |
| 0.0 | 0.4 | GO:0051965 | positive regulation of synapse assembly(GO:0051965) |
| 0.0 | 0.4 | GO:0034497 | protein localization to pre-autophagosomal structure(GO:0034497) |
| 0.0 | 0.4 | GO:0018095 | protein polyglutamylation(GO:0018095) |
| 0.1 | 0.3 | GO:0003376 | sphingosine-1-phosphate signaling pathway(GO:0003376) |
| 0.1 | 0.3 | GO:0034454 | microtubule anchoring at centrosome(GO:0034454) |
| 0.0 | 0.3 | GO:0051127 | positive regulation of actin nucleation(GO:0051127) positive regulation of Arp2/3 complex-mediated actin nucleation(GO:2000601) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 1.6 | GO:0070187 | telosome(GO:0070187) |
| 0.0 | 0.6 | GO:0005903 | brush border(GO:0005903) |
| 0.0 | 0.6 | GO:0005921 | gap junction(GO:0005921) |
| 0.0 | 0.5 | GO:0045271 | mitochondrial respiratory chain complex I(GO:0005747) NADH dehydrogenase complex(GO:0030964) respiratory chain complex I(GO:0045271) |
| 0.0 | 0.4 | GO:0005689 | U12-type spliceosomal complex(GO:0005689) |
| 0.0 | 0.4 | GO:0000407 | pre-autophagosomal structure(GO:0000407) |
| 0.0 | 0.3 | GO:0034451 | centriolar satellite(GO:0034451) |
| 0.0 | 0.3 | GO:0031209 | SCAR complex(GO:0031209) |
| 0.0 | 0.2 | GO:0014704 | intercalated disc(GO:0014704) |
| 0.0 | 0.2 | GO:0098563 | integral component of synaptic vesicle membrane(GO:0030285) intrinsic component of synaptic vesicle membrane(GO:0098563) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 0.6 | GO:0005436 | sodium:phosphate symporter activity(GO:0005436) |
| 0.0 | 0.6 | GO:0022829 | wide pore channel activity(GO:0022829) |
| 0.0 | 0.5 | GO:0048306 | calcium-dependent protein binding(GO:0048306) |
| 0.0 | 0.4 | GO:0070740 | protein-glutamic acid ligase activity(GO:0070739) tubulin-glutamic acid ligase activity(GO:0070740) |
| 0.0 | 0.3 | GO:0038036 | sphingosine-1-phosphate receptor activity(GO:0038036) |
| 0.0 | 0.3 | GO:0071933 | Arp2/3 complex binding(GO:0071933) |
| 0.1 | 0.2 | GO:0008179 | adenylate cyclase binding(GO:0008179) |
| 0.0 | 0.2 | GO:0019215 | intermediate filament binding(GO:0019215) |
| 0.0 | 0.2 | GO:0001609 | G-protein coupled adenosine receptor activity(GO:0001609) |
| 0.0 | 0.2 | GO:0048019 | receptor antagonist activity(GO:0048019) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 0.6 | PID BMP PATHWAY | BMP receptor signaling |
| 0.0 | 0.3 | PID S1P META PATHWAY | Sphingosine 1-phosphate (S1P) 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 |
|---|---|---|---|
| 0.0 | 0.7 | REACTOME NETRIN1 SIGNALING | Genes involved in Netrin-1 signaling |
| 0.0 | 0.2 | REACTOME RESOLUTION OF AP SITES VIA THE SINGLE NUCLEOTIDE REPLACEMENT PATHWAY | Genes involved in Resolution of AP sites via the single-nucleotide replacement pathway |