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PRJNA438478: RNAseq of wild type zebrafish germline
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Results for rx3
Z-value: 1.06
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Transcription factors associated with rx3
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| rx3 | dr11_v1_chr21_+_10756154_10756154 | -0.89 | 7.4e-07 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| chr10_-_21362071 Show fit | 4.64 |
ENSDART00000125167
|
avidin |
|
| chr10_-_21362320 Show fit | 4.35 |
ENSDART00000189789
|
avidin |
|
| chr9_-_35633827 Show fit | 4.26 |
ENSDART00000077745
|
zona pellucida glycoprotein 2, like 1 |
|
| chr20_-_23426339 Show fit | 4.13 |
ENSDART00000004625
|
zygote arrest 1 |
|
| chr18_-_40708537 Show fit | 4.00 |
ENSDART00000077577
|
si:ch211-132b12.8 |
|
| chr21_+_25777425 Show fit | 3.60 |
ENSDART00000021620
|
claudin d |
|
| chr8_+_45334255 Show fit | 3.42 |
ENSDART00000126848
ENSDART00000134161 ENSDART00000142322 ENSDART00000145011 ENSDART00000183560 |
poly(A) binding protein, cytoplasmic 1-like |
|
| chr11_-_44801968 Show fit | 3.22 |
ENSDART00000161846
|
microtubule-associated protein 1 light chain 3 gamma |
|
| chr1_-_18811517 Show fit | 3.05 |
ENSDART00000142026
|
si:dkey-167i21.2 |
|
| chr10_-_34002185 Show fit | 3.02 |
ENSDART00000046599
|
zygote arrest 1-like |
Network of associatons between targets according to the STRING database.
First level regulatory network of rx3
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 5.1 | GO:0017148 | negative regulation of translation(GO:0017148) |
| 0.7 | 3.6 | GO:0016338 | calcium-independent cell-cell adhesion via plasma membrane cell-adhesion molecules(GO:0016338) |
| 0.2 | 3.6 | 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) |
| 0.2 | 3.2 | GO:0043562 | cellular response to nitrogen starvation(GO:0006995) cellular response to nitrogen levels(GO:0043562) |
| 0.1 | 1.9 | GO:0042761 | very long-chain fatty acid biosynthetic process(GO:0042761) |
| 0.0 | 1.6 | GO:0015718 | monocarboxylic acid transport(GO:0015718) |
| 0.0 | 1.4 | GO:0060968 | regulation of gene silencing(GO:0060968) |
| 0.4 | 1.3 | 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) |
| 0.3 | 1.3 | GO:0090646 | mitochondrial tRNA processing(GO:0090646) |
| 0.1 | 1.3 | GO:0035493 | SNARE complex assembly(GO:0035493) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 4.3 | GO:0031012 | extracellular matrix(GO:0031012) |
| 0.1 | 3.6 | GO:0000421 | autophagosome membrane(GO:0000421) |
| 0.0 | 3.2 | GO:0070160 | bicellular tight junction(GO:0005923) occluding junction(GO:0070160) |
| 0.1 | 2.7 | GO:0010494 | cytoplasmic stress granule(GO:0010494) |
| 0.4 | 1.3 | GO:0097189 | apoptotic body(GO:0097189) |
| 0.2 | 1.3 | GO:0009295 | nucleoid(GO:0009295) mitochondrial nucleoid(GO:0042645) |
| 0.0 | 1.1 | GO:0031941 | filamentous actin(GO:0031941) |
| 0.0 | 1.1 | GO:0001726 | ruffle(GO:0001726) |
| 0.1 | 0.9 | GO:0016602 | CCAAT-binding factor complex(GO:0016602) |
| 0.0 | 0.9 | GO:0045180 | basal cortex(GO:0045180) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 1.8 | 9.0 | GO:0009374 | biotin binding(GO:0009374) |
| 0.0 | 7.4 | GO:0044822 | mRNA binding(GO:0003729) poly(A) RNA binding(GO:0044822) |
| 0.0 | 5.4 | GO:0042802 | identical protein binding(GO:0042802) |
| 0.2 | 3.4 | GO:0008266 | poly(U) RNA binding(GO:0008266) |
| 0.0 | 3.2 | GO:0031625 | ubiquitin protein ligase binding(GO:0031625) |
| 0.3 | 2.9 | GO:0035804 | structural constituent of egg coat(GO:0035804) |
| 0.2 | 2.1 | GO:0015129 | lactate transmembrane transporter activity(GO:0015129) |
| 0.0 | 1.9 | GO:0016627 | oxidoreductase activity, acting on the CH-CH group of donors(GO:0016627) |
| 0.3 | 1.3 | GO:0052905 | tRNA (guanine(9)-N(1))-methyltransferase activity(GO:0052905) |
| 0.1 | 1.1 | GO:0051371 | muscle alpha-actinin binding(GO:0051371) alpha-actinin binding(GO:0051393) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 1.3 | WNT SIGNALING | Genes related to Wnt-mediated signal transduction |
| 0.0 | 1.2 | PID PRL SIGNALING EVENTS PATHWAY | Signaling events mediated by PRL |
| 0.0 | 1.0 | NABA COLLAGENS | Genes encoding collagen proteins |
| 0.1 | 0.8 | PID TCR CALCIUM PATHWAY | Calcium signaling in the CD4+ TCR pathway |
| 0.0 | 0.8 | ST TUMOR NECROSIS FACTOR PATHWAY | Tumor Necrosis Factor Pathway. |
| 0.1 | 0.7 | SA FAS SIGNALING | The TNF-type receptor Fas induces apoptosis on ligand binding. |
| 0.0 | 0.6 | PID WNT NONCANONICAL PATHWAY | Noncanonical Wnt signaling pathway |
| 0.0 | 0.2 | PID ARF 3PATHWAY | Arf1 pathway |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 2.1 | REACTOME BILE SALT AND ORGANIC ANION SLC TRANSPORTERS | Genes involved in Bile salt and organic anion SLC transporters |
| 0.0 | 1.0 | REACTOME COLLAGEN FORMATION | Genes involved in Collagen formation |
| 0.1 | 0.7 | REACTOME SEMA3A PAK DEPENDENT AXON REPULSION | Genes involved in Sema3A PAK dependent Axon repulsion |
| 0.0 | 0.2 | REACTOME RETROGRADE NEUROTROPHIN SIGNALLING | Genes involved in Retrograde neurotrophin signalling |