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PRJNA438478: RNAseq of wild type zebrafish germline
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Results for gbx2
Z-value: 0.81
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Transcription factors associated with gbx2
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| gbx2 | dr11_v1_chr6_+_16031189_16031189 | -0.31 | 2.1e-01 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| chr11_-_6452444 Show fit | 4.46 |
ENSDART00000137879
ENSDART00000134957 ENSDART00000004483 |
La ribonucleoprotein domain family, member 6b |
|
| chr1_-_18811517 Show fit | 2.43 |
ENSDART00000142026
|
si:dkey-167i21.2 |
|
| chr7_-_33684632 Show fit | 2.38 |
ENSDART00000130553
|
transducin-like enhancer of split 3b |
|
| chr7_+_46019780 Show fit | 2.35 |
ENSDART00000163991
|
cyclin E1 |
|
| chr7_-_51727760 Show fit | 2.29 |
ENSDART00000174180
|
histone deacetylase 8 |
|
| chr17_+_24318753 Show fit | 2.21 |
ENSDART00000064083
|
orthodenticle homeobox 1 |
|
| chr12_-_35386910 Show fit | 2.16 |
ENSDART00000153453
|
calcium/calmodulin-dependent protein kinase (CaM kinase) II gamma 1 |
|
| chr8_+_23826985 Show fit | 2.10 |
ENSDART00000187430
|
mitogen-activated protein kinase 14a |
|
| chr6_+_3717613 Show fit | 1.66 |
ENSDART00000184330
|
Sjogren syndrome antigen B (autoantigen La) |
|
| chr7_+_59677273 Show fit | 1.60 |
ENSDART00000039535
ENSDART00000132044 |
tRNA methyltransferase 44 homolog |
Network of associatons between targets according to the STRING database.
First level regulatory network of gbx2
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 2.4 | GO:0000079 | regulation of cyclin-dependent protein serine/threonine kinase activity(GO:0000079) regulation of cyclin-dependent protein kinase activity(GO:1904029) |
| 0.0 | 2.4 | GO:0090090 | negative regulation of canonical Wnt signaling pathway(GO:0090090) |
| 0.3 | 2.3 | GO:0070933 | histone H4 deacetylation(GO:0070933) |
| 0.1 | 2.2 | GO:0003406 | retinal pigment epithelium development(GO:0003406) |
| 0.1 | 2.2 | GO:0072114 | pronephros morphogenesis(GO:0072114) |
| 0.3 | 2.1 | GO:1901741 | embryonic cleavage(GO:0040016) positive regulation of myoblast fusion(GO:1901741) |
| 0.2 | 1.6 | GO:0072383 | plus-end-directed vesicle transport along microtubule(GO:0072383) plus-end-directed organelle transport along microtubule(GO:0072386) |
| 0.0 | 1.6 | GO:0030488 | tRNA methylation(GO:0030488) |
| 0.0 | 1.4 | GO:0043171 | peptide catabolic process(GO:0043171) |
| 0.1 | 1.3 | GO:0055117 | regulation of cardiac muscle contraction(GO:0055117) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.6 | 2.4 | GO:0097134 | cyclin E1-CDK2 complex(GO:0097134) |
| 0.0 | 2.3 | GO:0000118 | histone deacetylase complex(GO:0000118) |
| 0.0 | 2.2 | GO:0005871 | kinesin complex(GO:0005871) |
| 0.1 | 1.2 | GO:0030315 | T-tubule(GO:0030315) |
| 0.1 | 1.1 | GO:0032783 | ELL-EAF complex(GO:0032783) |
| 0.1 | 1.1 | GO:0071144 | SMAD2-SMAD3 protein complex(GO:0071144) |
| 0.0 | 0.4 | GO:0034399 | nuclear periphery(GO:0034399) |
| 0.0 | 0.4 | GO:0005940 | septin ring(GO:0005940) septin complex(GO:0031105) septin cytoskeleton(GO:0032156) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 2.4 | GO:0070491 | repressing transcription factor binding(GO:0070491) |
| 0.0 | 2.4 | GO:0016538 | cyclin-dependent protein serine/threonine kinase regulator activity(GO:0016538) |
| 0.2 | 2.3 | GO:0031078 | histone deacetylase activity (H3-K14 specific)(GO:0031078) NAD-dependent histone deacetylase activity (H3-K14 specific)(GO:0032041) |
| 0.0 | 2.2 | GO:0004683 | calmodulin-dependent protein kinase activity(GO:0004683) |
| 0.0 | 2.2 | GO:0003777 | microtubule motor activity(GO:0003777) |
| 0.1 | 2.1 | GO:0004707 | MAP kinase activity(GO:0004707) |
| 0.5 | 1.6 | GO:0016300 | tRNA (uracil) methyltransferase activity(GO:0016300) |
| 0.0 | 1.4 | GO:0070006 | metalloaminopeptidase activity(GO:0070006) |
| 0.1 | 1.2 | GO:0070001 | aspartic-type endopeptidase activity(GO:0004190) aspartic-type peptidase activity(GO:0070001) |
| 0.2 | 1.1 | GO:0070016 | armadillo repeat domain binding(GO:0070016) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.2 | 5.1 | PID PRL SIGNALING EVENTS PATHWAY | Signaling events mediated by PRL |
| 0.0 | 1.9 | PID HDAC CLASSI PATHWAY | Signaling events mediated by HDAC Class I |
| 0.1 | 1.1 | PID SMAD2 3PATHWAY | Regulation of cytoplasmic and nuclear SMAD2/3 signaling |
| 0.0 | 0.6 | PID RXR VDR PATHWAY | RXR and RAR heterodimerization with other nuclear receptor |
| 0.0 | 0.6 | PID WNT NONCANONICAL PATHWAY | Noncanonical Wnt signaling pathway |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 2.4 | REACTOME G1 S SPECIFIC TRANSCRIPTION | Genes involved in G1/S-Specific Transcription |
| 0.1 | 2.3 | REACTOME NOTCH1 INTRACELLULAR DOMAIN REGULATES TRANSCRIPTION | Genes involved in NOTCH1 Intracellular Domain Regulates Transcription |
| 0.1 | 1.3 | REACTOME RNA POL III TRANSCRIPTION TERMINATION | Genes involved in RNA Polymerase III Transcription Termination |
| 0.1 | 1.1 | REACTOME SIGNALING BY NODAL | Genes involved in Signaling by NODAL |
| 0.0 | 0.9 | REACTOME GOLGI ASSOCIATED VESICLE BIOGENESIS | Genes involved in Golgi Associated Vesicle Biogenesis |
| 0.0 | 0.6 | REACTOME SIGNALING BY HIPPO | Genes involved in Signaling by Hippo |
| 0.0 | 0.4 | REACTOME TRANSPORT OF RIBONUCLEOPROTEINS INTO THE HOST NUCLEUS | Genes involved in Transport of Ribonucleoproteins into the Host Nucleus |