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PRJNA438478: RNAseq of wild type zebrafish germline
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Results for rargb_pparab
Z-value: 1.08
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Transcription factors associated with rargb_pparab
Activity-expression correlation:
| Gene | Promoter | Pearson corr. coef. | P-value | Plot |
|---|---|---|---|---|
| pparab | dr11_v1_chr25_+_2229301_2229301 | -0.36 | 1.4e-01 | Click! |
| rargb | dr11_v1_chr11_+_2089461_2089461 | 0.30 | 2.2e-01 | Click! |
| Promoter | Log-likelihood | Transcript | Gene | Gene Info |
|---|---|---|---|---|
| chr12_+_49125510 Show fit | 3.76 |
ENSDART00000185804
|
|
|
| chr1_+_57311901 Show fit | 3.47 |
ENSDART00000149397
|
mycbp associated protein |
|
| chr1_-_14694809 Show fit | 3.37 |
ENSDART00000193331
|
|
|
| chr5_+_42467867 Show fit | 3.36 |
ENSDART00000172028
|
Pim proto-oncogene, serine/threonine kinase, related 58 |
|
| chr5_+_62723233 Show fit | 3.23 |
ENSDART00000183718
|
nanos homolog 2 |
|
| chr9_+_52613820 Show fit | 3.21 |
ENSDART00000168753
ENSDART00000165580 ENSDART00000164769 |
si:ch211-241j8.2 |
|
| chr5_+_20693724 Show fit | 3.09 |
ENSDART00000141368
|
si:ch211-240b21.2 |
|
| chr20_+_54738210 Show fit | 3.09 |
ENSDART00000151399
|
p21 protein (Cdc42/Rac)-activated kinase 7 |
|
| chr18_+_7456888 Show fit | 3.08 |
ENSDART00000081468
|
telomere repeat binding bouquet formation protein 1 |
|
| chr16_+_26012569 Show fit | 2.90 |
ENSDART00000148846
|
protease, serine, 59, tandem duplicate 1 |
Network of associatons between targets according to the STRING database.
First level regulatory network of rargb_pparab
Gene Ontology Analysis
Gene overrepresentation in biological process category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.1 | 25.8 | GO:0046777 | protein autophosphorylation(GO:0046777) |
| 0.0 | 6.3 | GO:0007601 | visual perception(GO:0007601) |
| 1.8 | 5.4 | GO:0070197 | 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) |
| 0.4 | 4.7 | GO:0006123 | mitochondrial electron transport, cytochrome c to oxygen(GO:0006123) |
| 0.2 | 4.6 | GO:0055003 | cardiac myofibril assembly(GO:0055003) |
| 0.2 | 4.4 | GO:0030388 | fructose 1,6-bisphosphate metabolic process(GO:0030388) |
| 0.2 | 4.2 | GO:0021984 | adenohypophysis development(GO:0021984) |
| 0.2 | 4.0 | GO:0010257 | NADH dehydrogenase complex assembly(GO:0010257) mitochondrial respiratory chain complex I assembly(GO:0032981) mitochondrial respiratory chain complex I biogenesis(GO:0097031) |
| 0.2 | 3.9 | GO:0015986 | energy coupled proton transport, down electrochemical gradient(GO:0015985) ATP synthesis coupled proton transport(GO:0015986) |
| 0.7 | 3.7 | GO:1902369 | negative regulation of RNA catabolic process(GO:1902369) |
Gene overrepresentation in cellular component category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.2 | 11.0 | GO:0005746 | mitochondrial respiratory chain(GO:0005746) |
| 0.4 | 5.4 | GO:0070187 | telosome(GO:0070187) |
| 0.1 | 4.3 | GO:0080008 | Cul4-RING E3 ubiquitin ligase complex(GO:0080008) |
| 0.0 | 3.8 | GO:0036064 | ciliary basal body(GO:0036064) |
| 0.1 | 3.7 | GO:0031305 | integral component of mitochondrial inner membrane(GO:0031305) |
| 0.1 | 3.5 | GO:0005834 | heterotrimeric G-protein complex(GO:0005834) |
| 0.0 | 3.5 | GO:0005884 | actin filament(GO:0005884) |
| 0.1 | 3.3 | GO:0005930 | axoneme(GO:0005930) |
| 0.5 | 3.2 | GO:0000801 | central element(GO:0000801) |
| 0.0 | 3.0 | GO:0000118 | histone deacetylase complex(GO:0000118) |
Gene overrepresentation in molecular function category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.3 | 6.9 | GO:0016676 | cytochrome-c oxidase activity(GO:0004129) heme-copper terminal oxidase activity(GO:0015002) oxidoreductase activity, acting on a heme group of donors(GO:0016675) oxidoreductase activity, acting on a heme group of donors, oxygen as acceptor(GO:0016676) |
| 0.1 | 5.3 | GO:0005212 | structural constituent of eye lens(GO:0005212) |
| 0.2 | 5.1 | GO:0004693 | cyclin-dependent protein serine/threonine kinase activity(GO:0004693) cyclin-dependent protein kinase activity(GO:0097472) |
| 0.0 | 4.8 | GO:0051015 | actin filament binding(GO:0051015) |
| 0.1 | 4.4 | GO:0009975 | cyclase activity(GO:0009975) |
| 0.0 | 4.3 | GO:0005249 | voltage-gated potassium channel activity(GO:0005249) |
| 0.0 | 4.3 | GO:0004252 | serine-type endopeptidase activity(GO:0004252) |
| 0.5 | 4.2 | GO:0004332 | fructose-bisphosphate aldolase activity(GO:0004332) |
| 0.0 | 3.6 | GO:0015078 | hydrogen ion transmembrane transporter activity(GO:0015078) |
| 0.3 | 3.3 | GO:0003726 | double-stranded RNA adenosine deaminase activity(GO:0003726) |
Gene overrepresentation in curated gene sets: canonical pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.2 | 3.8 | SIG REGULATION OF THE ACTIN CYTOSKELETON BY RHO GTPASES | Genes related to regulation of the actin cytoskeleton |
| 0.0 | 3.2 | NABA ECM GLYCOPROTEINS | Genes encoding structural ECM glycoproteins |
| 0.1 | 2.1 | NABA COLLAGENS | Genes encoding collagen proteins |
| 0.0 | 1.6 | PID A6B1 A6B4 INTEGRIN PATHWAY | a6b1 and a6b4 Integrin signaling |
| 0.1 | 1.2 | PID RHODOPSIN PATHWAY | Visual signal transduction: Rods |
| 0.0 | 1.2 | NABA PROTEOGLYCANS | Genes encoding proteoglycans |
| 0.0 | 1.1 | PID HDAC CLASSI PATHWAY | Signaling events mediated by HDAC Class I |
| 0.0 | 1.0 | PID AP1 PATHWAY | AP-1 transcription factor network |
| 0.0 | 0.8 | ST GA13 PATHWAY | G alpha 13 Pathway |
| 0.0 | 0.8 | PID P75 NTR PATHWAY | p75(NTR)-mediated signaling |
Gene overrepresentation in curated gene sets: REACTOME pathways category:
| Log-likelihood per target | Total log-likelihood | Term | Description |
|---|---|---|---|
| 0.2 | 11.4 | REACTOME RESPIRATORY ELECTRON TRANSPORT | Genes involved in Respiratory electron transport |
| 0.3 | 4.9 | REACTOME ACTIVATION OF RAC | Genes involved in Activation of Rac |
| 0.2 | 4.7 | REACTOME GLUCAGON SIGNALING IN METABOLIC REGULATION | Genes involved in Glucagon signaling in metabolic regulation |
| 0.0 | 3.9 | REACTOME PEPTIDE CHAIN ELONGATION | Genes involved in Peptide chain elongation |
| 0.2 | 2.2 | REACTOME REGULATION OF PYRUVATE DEHYDROGENASE PDH COMPLEX | Genes involved in Regulation of pyruvate dehydrogenase (PDH) complex |
| 0.0 | 2.1 | REACTOME COLLAGEN FORMATION | Genes involved in Collagen formation |
| 0.1 | 1.9 | REACTOME BRANCHED CHAIN AMINO ACID CATABOLISM | Genes involved in Branched-chain amino acid catabolism |
| 0.1 | 1.7 | REACTOME INITIAL TRIGGERING OF COMPLEMENT | Genes involved in Initial triggering of complement |
| 0.1 | 1.7 | REACTOME PROCESSING OF INTRONLESS PRE MRNAS | Genes involved in Processing of Intronless Pre-mRNAs |
| 0.1 | 1.6 | REACTOME ENDOSOMAL SORTING COMPLEX REQUIRED FOR TRANSPORT ESCRT | Genes involved in Endosomal Sorting Complex Required For Transport (ESCRT) |