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PRJNA438478: RNAseq of wild type zebrafish germline
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Results for lmx1a
Z-value: 0.83
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Transcription factors associated with lmx1a
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| lmx1a | dr11_v1_chr20_+_33924235_33924236 | -0.93 | 1.4e-08 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| chr3_+_39853788 Show fit | 3.10 |
ENSDART00000154869
|
calcium channel, voltage-dependent, T type, alpha 1H subunit a |
|
| chr8_+_43340995 Show fit | 3.00 |
ENSDART00000038566
|
refilin A |
|
| chr18_+_46382484 Show fit | 2.71 |
ENSDART00000024202
ENSDART00000142790 |
dynein assembly factor with WDR repeat domains 1 |
|
| chr11_-_2838699 Show fit | 2.32 |
ENSDART00000066189
|
LHFPL tetraspan subfamily member 5a |
|
| chr24_-_26328721 Show fit | 2.30 |
ENSDART00000125468
|
apolipoprotein Db |
|
| chr11_-_25733910 Show fit | 2.03 |
ENSDART00000171935
|
bromodomain and PHD finger containing, 3a |
|
| chr22_-_24285432 Show fit | 1.96 |
ENSDART00000164083
|
si:ch211-117l17.4 |
|
| chr25_-_16157776 Show fit | 1.93 |
ENSDART00000138453
|
si:dkey-80c24.5 |
|
| chr18_-_17485419 Show fit | 1.84 |
ENSDART00000018764
|
forkhead box L1 |
|
| chr25_+_16189044 Show fit | 1.73 |
ENSDART00000143975
|
si:dkey-80c24.1 |
Network of associatons between targets according to the STRING database.
First level regulatory network of lmx1a
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 3.7 | GO:0046777 | protein autophosphorylation(GO:0046777) |
| 0.2 | 3.1 | GO:0086010 | membrane depolarization during action potential(GO:0086010) |
| 1.0 | 3.0 | GO:0032331 | negative regulation of chondrocyte differentiation(GO:0032331) negative regulation of cartilage development(GO:0061037) negative regulation of chondrocyte development(GO:0061182) regulation of bone mineralization involved in bone maturation(GO:1900157) negative regulation of bone mineralization involved in bone maturation(GO:1900158) negative regulation of bone development(GO:1903011) |
| 0.1 | 2.7 | GO:0001539 | cilium or flagellum-dependent cell motility(GO:0001539) cilium-dependent cell motility(GO:0060285) |
| 0.1 | 2.7 | GO:0060122 | inner ear receptor stereocilium organization(GO:0060122) |
| 0.3 | 2.4 | GO:0051965 | positive regulation of synapse assembly(GO:0051965) |
| 0.1 | 2.3 | GO:0007568 | aging(GO:0007568) |
| 0.1 | 2.0 | GO:0044154 | histone H3-K14 acetylation(GO:0044154) |
| 0.0 | 2.0 | GO:0014059 | dopamine secretion(GO:0014046) regulation of dopamine secretion(GO:0014059) |
| 0.0 | 1.8 | GO:0035138 | pectoral fin morphogenesis(GO:0035138) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 3.1 | GO:0001518 | voltage-gated sodium channel complex(GO:0001518) sodium channel complex(GO:0034706) |
| 0.0 | 3.0 | GO:0032432 | actin filament bundle(GO:0032432) |
| 0.1 | 2.0 | GO:0070775 | H3 histone acetyltransferase complex(GO:0070775) MOZ/MORF histone acetyltransferase complex(GO:0070776) |
| 0.1 | 1.9 | GO:0016010 | dystrophin-associated glycoprotein complex(GO:0016010) glycoprotein complex(GO:0090665) |
| 0.4 | 1.6 | GO:0070319 | Golgi to plasma membrane transport vesicle(GO:0070319) |
| 0.0 | 0.9 | GO:0005921 | gap junction(GO:0005921) |
| 0.1 | 0.8 | GO:0030285 | integral component of synaptic vesicle membrane(GO:0030285) intrinsic component of synaptic vesicle membrane(GO:0098563) |
| 0.0 | 0.7 | GO:0032420 | stereocilium(GO:0032420) |
| 0.1 | 0.6 | GO:0019815 | B cell receptor complex(GO:0019815) |
| 0.0 | 0.6 | GO:0098978 | glutamatergic synapse(GO:0098978) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.4 | 3.1 | GO:0008332 | low voltage-gated calcium channel activity(GO:0008332) |
| 0.7 | 3.0 | GO:0031005 | filamin binding(GO:0031005) |
| 0.1 | 2.0 | GO:0010484 | H3 histone acetyltransferase activity(GO:0010484) histone acetyltransferase activity (H3-K23 specific)(GO:0043994) |
| 0.0 | 1.4 | GO:0001786 | phosphatidylserine binding(GO:0001786) |
| 0.0 | 0.9 | GO:0022829 | wide pore channel activity(GO:0022829) |
| 0.0 | 0.7 | GO:0005178 | integrin binding(GO:0005178) |
| 0.0 | 0.6 | GO:0001591 | dopamine neurotransmitter receptor activity, coupled via Gi/Go(GO:0001591) |
| 0.1 | 0.5 | GO:0034597 | phosphatidylinositol-4,5-bisphosphate 4-phosphatase activity(GO:0034597) |
| 0.0 | 0.5 | GO:0016500 | protein-hormone receptor activity(GO:0016500) |
| 0.0 | 0.5 | GO:0004298 | threonine-type endopeptidase activity(GO:0004298) threonine-type peptidase activity(GO:0070003) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 0.5 | PID ARF6 PATHWAY | Arf6 signaling events |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 0.5 | REACTOME HORMONE LIGAND BINDING RECEPTORS | Genes involved in Hormone ligand-binding receptors |
| 0.0 | 0.5 | REACTOME CROSS PRESENTATION OF SOLUBLE EXOGENOUS ANTIGENS ENDOSOMES | Genes involved in Cross-presentation of soluble exogenous antigens (endosomes) |
| 0.0 | 0.5 | REACTOME NRAGE SIGNALS DEATH THROUGH JNK | Genes involved in NRAGE signals death through JNK |