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PRJDB7713: Age associated transcriptome analysis in 5 tissues of zebrafish
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Results for SPDEF
Z-value: 1.38
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Transcription factors associated with SPDEF
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| SPDEF | dr11_v1_chr6_-_54290227_54290227 | 0.22 | 3.6e-02 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| chr14_+_28438947 Show fit | 11.25 |
ENSDART00000006489
|
acyl-CoA synthetase long chain family member 4a |
|
| chr21_+_6751760 Show fit | 8.70 |
ENSDART00000135914
|
olfactomedin 1b |
|
| chr21_+_6751405 Show fit | 7.96 |
ENSDART00000037265
ENSDART00000146371 |
olfactomedin 1b |
|
| chr3_-_36440705 Show fit | 7.65 |
ENSDART00000162875
|
rogdi homolog (Drosophila) |
|
| chr8_-_49431939 Show fit | 7.48 |
ENSDART00000011453
ENSDART00000088240 ENSDART00000114173 |
synaptophysin b |
|
| chr1_-_44581937 Show fit | 6.95 |
ENSDART00000009858
|
thioredoxin-related transmembrane protein 2b |
|
| chr5_+_64732270 Show fit | 6.66 |
ENSDART00000134241
|
olfactomedin 1a |
|
| chr16_-_16212615 Show fit | 6.48 |
ENSDART00000059905
|
uridine phosphorylase 1 |
|
| chr5_+_64732036 Show fit | 6.37 |
ENSDART00000073950
|
olfactomedin 1a |
|
| chr12_-_14211293 Show fit | 6.32 |
ENSDART00000158399
|
AVL9 homolog (S. cerevisiase) |
Network of associatons between targets according to the STRING database.
First level regulatory network of SPDEF
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.0 | 16.5 | GO:0006397 | mRNA processing(GO:0006397) |
| 0.5 | 15.5 | GO:0000462 | maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)(GO:0000462) |
| 0.6 | 13.8 | GO:0043124 | negative regulation of I-kappaB kinase/NF-kappaB signaling(GO:0043124) |
| 1.4 | 13.0 | GO:0061075 | positive regulation of neural retina development(GO:0061075) positive regulation of retina development in camera-type eye(GO:1902868) |
| 1.9 | 11.3 | GO:1900744 | regulation of p38MAPK cascade(GO:1900744) |
| 3.4 | 10.2 | GO:0015889 | cobalt ion transport(GO:0006824) cobalamin transport(GO:0015889) |
| 0.1 | 8.0 | GO:0006487 | protein N-linked glycosylation(GO:0006487) |
| 0.3 | 7.5 | GO:0048168 | regulation of neuronal synaptic plasticity(GO:0048168) |
| 0.2 | 7.3 | GO:0018231 | peptidyl-L-cysteine S-palmitoylation(GO:0018230) peptidyl-S-diacylglycerol-L-cysteine biosynthetic process from peptidyl-cysteine(GO:0018231) |
| 0.1 | 7.3 | GO:0042147 | retrograde transport, endosome to Golgi(GO:0042147) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 33.8 | GO:0005789 | endoplasmic reticulum membrane(GO:0005789) |
| 0.0 | 31.0 | GO:0045202 | synapse(GO:0045202) |
| 0.9 | 12.4 | GO:0008250 | oligosaccharyltransferase complex(GO:0008250) |
| 0.2 | 11.1 | GO:0005811 | lipid particle(GO:0005811) |
| 1.6 | 11.0 | GO:0034388 | Pwp2p-containing subcomplex of 90S preribosome(GO:0034388) |
| 0.1 | 8.5 | GO:0055037 | recycling endosome(GO:0055037) |
| 0.1 | 8.4 | GO:0030672 | synaptic vesicle membrane(GO:0030672) exocytic vesicle membrane(GO:0099501) |
| 1.9 | 7.7 | GO:0043291 | RAVE complex(GO:0043291) |
| 0.3 | 7.5 | GO:0030687 | preribosome, large subunit precursor(GO:0030687) |
| 0.1 | 7.2 | GO:0030173 | integral component of Golgi membrane(GO:0030173) intrinsic component of Golgi membrane(GO:0031228) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.4 | 13.8 | GO:0030145 | manganese ion binding(GO:0030145) |
| 1.0 | 11.3 | GO:0047676 | arachidonate-CoA ligase activity(GO:0047676) |
| 0.3 | 9.6 | GO:0043539 | protein serine/threonine kinase activator activity(GO:0043539) |
| 1.0 | 8.2 | GO:0031419 | cobalamin binding(GO:0031419) |
| 0.2 | 7.5 | GO:0017075 | syntaxin-1 binding(GO:0017075) |
| 0.2 | 7.3 | GO:0019707 | protein-cysteine S-palmitoyltransferase activity(GO:0019706) protein-cysteine S-acyltransferase activity(GO:0019707) |
| 0.1 | 6.5 | GO:0016763 | transferase activity, transferring pentosyl groups(GO:0016763) |
| 0.1 | 5.9 | GO:0008146 | sulfotransferase activity(GO:0008146) |
| 0.1 | 5.8 | GO:0005544 | calcium-dependent phospholipid binding(GO:0005544) |
| 0.5 | 5.4 | GO:0016936 | galactoside binding(GO:0016936) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 5.5 | PID CDC42 REG PATHWAY | Regulation of CDC42 activity |
| 0.3 | 4.6 | PID S1P S1P2 PATHWAY | S1P2 pathway |
| 0.1 | 4.0 | PID PLK1 PATHWAY | PLK1 signaling events |
| 0.1 | 3.8 | PID VEGFR1 2 PATHWAY | Signaling events mediated by VEGFR1 and VEGFR2 |
| 0.1 | 3.7 | PID NFAT 3PATHWAY | Role of Calcineurin-dependent NFAT signaling in lymphocytes |
| 0.2 | 3.6 | ST GA12 PATHWAY | G alpha 12 Pathway |
| 0.2 | 3.6 | PID RXR VDR PATHWAY | RXR and RAR heterodimerization with other nuclear receptor |
| 0.1 | 3.4 | PID NEPHRIN NEPH1 PATHWAY | Nephrin/Neph1 signaling in the kidney podocyte |
| 0.1 | 3.4 | ST FAS SIGNALING PATHWAY | Fas Signaling Pathway |
| 0.0 | 3.2 | PID SMAD2 3NUCLEAR PATHWAY | Regulation of nuclear SMAD2/3 signaling |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 1.2 | 13.4 | REACTOME REGULATION OF AMPK ACTIVITY VIA LKB1 | Genes involved in Regulation of AMPK activity via LKB1 |
| 0.1 | 10.1 | REACTOME ASPARAGINE N LINKED GLYCOSYLATION | Genes involved in Asparagine N-linked glycosylation |
| 1.1 | 7.5 | REACTOME DSCAM INTERACTIONS | Genes involved in DSCAM interactions |
| 0.8 | 6.5 | REACTOME PYRIMIDINE CATABOLISM | Genes involved in Pyrimidine catabolism |
| 0.3 | 5.4 | REACTOME CITRIC ACID CYCLE TCA CYCLE | Genes involved in Citric acid cycle (TCA cycle) |
| 0.2 | 5.0 | REACTOME ABC FAMILY PROTEINS MEDIATED TRANSPORT | Genes involved in ABC-family proteins mediated transport |
| 0.2 | 4.9 | REACTOME REGULATION OF SIGNALING BY CBL | Genes involved in Regulation of signaling by CBL |
| 0.5 | 4.4 | REACTOME ADVANCED GLYCOSYLATION ENDPRODUCT RECEPTOR SIGNALING | Genes involved in Advanced glycosylation endproduct receptor signaling |
| 0.0 | 4.4 | REACTOME SIGNALING BY RHO GTPASES | Genes involved in Signaling by Rho GTPases |
| 0.3 | 4.3 | REACTOME SYNTHESIS OF PE | Genes involved in Synthesis of PE |