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PRJDB7713: Age associated transcriptome analysis in 5 tissues of zebrafish

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Results for prdm4

Z-value: 0.37

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Transcription factors associated with prdm4

Gene Symbol Gene ID Gene Info
prdm4
ENSDARG00000017366 PR domain containing 4

Activity-expression correlation:

GenePromoterPearson corr. coef.P-valuePlot
prdm4dr11_v1_chr4_-_14926637_149266370.019.5e-01Click!

Activity profile of prdm4 motif

Sorted Z-values of prdm4 motif

Top targets:  

Promoter Log-likelihood Transcript Gene Gene Info
chr3_+_31621774 5.92 ENSDART00000076636
fzd2
frizzled class receptor 2
chr9_-_13355071 3.60 ENSDART00000084055
fzd7a
frizzled class receptor 7a
chr23_-_24682244 2.68 ENSDART00000104035
ctdsp2
CTD (carboxy-terminal domain, RNA polymerase II, polypeptide A) small phosphatase 2
chr9_+_41690153 1.94 ENSDART00000100226
ctdsp1
CTD (carboxy-terminal domain, RNA polymerase II, polypeptide A) small phosphatase 1
chr6_-_9707599 1.49 ENSDART00000039280
fzd7b
frizzled class receptor 7b
chr5_+_27442247 1.48 ENSDART00000184129
loxl2b
lysyl oxidase-like 2b
chr10_-_9115383 1.09 ENSDART00000139324
si:dkeyp-41f9.3
si:dkeyp-41f9.3
chr22_-_21046843 0.97 ENSDART00000133982
ssbp4
single stranded DNA binding protein 4
chr19_+_2670130 0.94 ENSDART00000152152
si:ch73-24k9.2
si:ch73-24k9.2
chr9_+_22359919 0.80 ENSDART00000009591
crygs4
crystallin, gamma S4
chr10_+_43037064 0.78 ENSDART00000160159
atg10
ATG10 autophagy related 10 homolog (S. cerevisiae)
chr21_-_37027252 0.78 ENSDART00000076483
zgc:77151
zgc:77151
chr4_-_2868112 0.69 ENSDART00000133843
pde3a
phosphodiesterase 3A, cGMP-inhibited
chr3_+_25999477 0.65 ENSDART00000024316
mcm5
minichromosome maintenance complex component 5
chrM_+_9735 0.65 ENSDART00000093613
mt-co3
cytochrome c oxidase III, mitochondrial
chr11_-_6868474 0.62 ENSDART00000168372
lsm4
LSM4 homolog, U6 small nuclear RNA and mRNA degradation associated
chr1_+_12348213 0.55 ENSDART00000144920
ENSDART00000138759
ENSDART00000067082
clta
clathrin, light chain A
chr11_-_6868287 0.54 ENSDART00000037824
lsm4
LSM4 homolog, U6 small nuclear RNA and mRNA degradation associated
chr4_-_2867461 0.46 ENSDART00000160308
pde3a
phosphodiesterase 3A, cGMP-inhibited
chr17_-_31611692 0.42 ENSDART00000141480
si:dkey-170l10.1
si:dkey-170l10.1
chr1_+_56180416 0.37 ENSDART00000089358
crb3b
crumbs homolog 3b
chr17_+_31611854 0.37 ENSDART00000011706
adprhl2
ADP-ribosylhydrolase like 2
chr22_-_21046654 0.25 ENSDART00000064902
ssbp4
single stranded DNA binding protein 4
chr24_-_27409599 0.22 ENSDART00000041770
ccl34b.3
chemokine (C-C motif) ligand 34b, duplicate 3
chr10_-_3332362 0.17 ENSDART00000007577
ENSDART00000055140
tor4aa
torsin family 4, member Aa
chr24_+_29912509 0.17 ENSDART00000168422
frrs1b
ferric-chelate reductase 1b
chr3_+_40407352 0.03 ENSDART00000155112
tnrc18
trinucleotide repeat containing 18

Network of associatons between targets according to the STRING database.

First level regulatory network of prdm4

PNG image of the network

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Gene Ontology Analysis

Gene overrepresentation in biological process category:

Log-likelihood per target  Total log-likelihood Term Description
2.0 5.9 GO:0061341 non-canonical Wnt signaling pathway involved in heart development(GO:0061341)
0.7 3.6 GO:0035988 chondrocyte proliferation(GO:0035988)
0.4 1.5 GO:1902455 negative regulation of stem cell population maintenance(GO:1902455)
0.2 1.1 GO:0060282 positive regulation of oocyte development(GO:0060282)
0.1 1.2 GO:0033962 cytoplasmic mRNA processing body assembly(GO:0033962)
0.1 0.7 GO:0036388 pre-replicative complex assembly involved in nuclear cell cycle DNA replication(GO:0006267) pre-replicative complex assembly(GO:0036388) pre-replicative complex assembly involved in cell cycle DNA replication(GO:1902299)
0.1 0.7 GO:0006123 mitochondrial electron transport, cytochrome c to oxygen(GO:0006123)
0.0 1.5 GO:0035567 non-canonical Wnt signaling pathway(GO:0035567)
0.0 0.5 GO:0048268 clathrin coat assembly(GO:0048268)

Gene overrepresentation in cellular component category:

Log-likelihood per target  Total log-likelihood Term Description
0.1 1.2 GO:0005688 U6 snRNP(GO:0005688)
0.0 0.7 GO:0042555 MCM complex(GO:0042555)
0.0 0.7 GO:0045277 respiratory chain complex IV(GO:0045277)
0.0 0.5 GO:0012510 trans-Golgi network transport vesicle membrane(GO:0012510) clathrin coat of trans-Golgi network vesicle(GO:0030130) clathrin coat of coated pit(GO:0030132)
0.0 5.1 GO:0010008 endosome membrane(GO:0010008)
0.0 1.5 GO:0005604 basement membrane(GO:0005604)

Gene overrepresentation in molecular function category:

Log-likelihood per target  Total log-likelihood Term Description
0.7 11.0 GO:0042813 Wnt-activated receptor activity(GO:0042813)
0.5 4.6 GO:0008420 CTD phosphatase activity(GO:0008420)
0.3 0.8 GO:0019777 Atg12 transferase activity(GO:0019777)
0.1 1.2 GO:0017070 U6 snRNA binding(GO:0017070)
0.1 1.5 GO:0004720 protein-lysine 6-oxidase activity(GO:0004720)
0.1 0.7 GO:0017116 single-stranded DNA-dependent ATP-dependent DNA helicase activity(GO:0017116) single-stranded DNA-dependent ATPase activity(GO:0043142)
0.0 1.1 GO:0004115 3',5'-cyclic-AMP phosphodiesterase activity(GO:0004115)
0.0 0.5 GO:0032050 clathrin heavy chain binding(GO:0032050)
0.0 0.7 GO:0016675 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)
0.0 0.8 GO:0005212 structural constituent of eye lens(GO:0005212)

Gene overrepresentation in curated gene sets: canonical pathways category:

Log-likelihood per target  Total log-likelihood Term Description
0.3 4.6 PID SMAD2 3PATHWAY Regulation of cytoplasmic and nuclear SMAD2/3 signaling
0.3 5.9 PID WNT SIGNALING PATHWAY Wnt signaling network
0.0 0.5 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 5.9 REACTOME CLASS B 2 SECRETIN FAMILY RECEPTORS Genes involved in Class B/2 (Secretin family receptors)
0.1 0.5 REACTOME GAP JUNCTION DEGRADATION Genes involved in Gap junction degradation
0.1 1.1 REACTOME CGMP EFFECTS Genes involved in cGMP effects
0.1 1.2 REACTOME MRNA DECAY BY 5 TO 3 EXORIBONUCLEASE Genes involved in mRNA Decay by 5' to 3' Exoribonuclease
0.1 2.7 REACTOME ACTIVATION OF CHAPERONE GENES BY XBP1S Genes involved in Activation of Chaperone Genes by XBP1(S)
0.0 0.7 REACTOME UNWINDING OF DNA Genes involved in Unwinding of DNA