ISMARA results: prdm4

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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 NCBI UniProt	ENSDARG00000017366	PR domain containing 4

Activity-expression correlation:

Gene	Promoter	Pearson corr. coef.	P-value	Plot
prdm4	dr11_v1_chr4_-_14926637_14926637	0.01	9.5e-01	Click!

Activity profile of prdm4 motif

Sorted Z-values of prdm4 motif

Top targets:

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Promoter	Log-likelihood	Transcript	Gene	Gene Info
chr3_+_31621774 Show fit	5.92	ENSDART00000076636	fzd2 NCBI UniProt Show fit	frizzled class receptor 2
chr9_-_13355071 Show fit	3.60	ENSDART00000084055	fzd7a NCBI UniProt Show fit	frizzled class receptor 7a
chr23_-_24682244 Show fit	2.68	ENSDART00000104035	ctdsp2 NCBI UniProt Show fit	CTD (carboxy-terminal domain, RNA polymerase II, polypeptide A) small phosphatase 2
chr9_+_41690153 Show fit	1.94	ENSDART00000100226	ctdsp1 NCBI UniProt Show fit	CTD (carboxy-terminal domain, RNA polymerase II, polypeptide A) small phosphatase 1
chr6_-_9707599 Show fit	1.49	ENSDART00000039280	fzd7b NCBI UniProt Show fit	frizzled class receptor 7b
chr5_+_27442247 Show fit	1.48	ENSDART00000184129	loxl2b NCBI UniProt Show fit	lysyl oxidase-like 2b
chr10_-_9115383 Show fit	1.09	ENSDART00000139324	si:dkeyp-41f9.3 NCBI UniProt Show fit	si:dkeyp-41f9.3
chr22_-_21046843 Show fit	0.97	ENSDART00000133982	ssbp4 NCBI UniProt Show fit	single stranded DNA binding protein 4
chr19_+_2670130 Show fit	0.94	ENSDART00000152152	si:ch73-24k9.2 NCBI UniProt Show fit	si:ch73-24k9.2
chr9_+_22359919 Show fit	0.80	ENSDART00000009591	crygs4 NCBI UniProt Show fit	crystallin, gamma S4

Showing 1 to 10 of 27 entries

Network of associatons between targets according to the STRING database.

First level regulatory network of prdm4

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Gene Ontology Analysis

Gene overrepresentation in biological process category:

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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)
0.0	1.5	GO:0035567	non-canonical Wnt signaling pathway(GO:0035567)
0.1	1.2	GO:0033962	cytoplasmic mRNA processing body assembly(GO:0033962)
0.2	1.1	GO:0060282	positive regulation of oocyte development(GO:0060282)
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	0.5	GO:0048268	clathrin coat assembly(GO:0048268)

Showing 1 to 9 of 9 entries

Gene overrepresentation in cellular component category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.0	5.1	GO:0010008	endosome membrane(GO:0010008)
0.0	1.5	GO:0005604	basement membrane(GO:0005604)
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)

Showing 1 to 6 of 6 entries

Gene overrepresentation in molecular function category:

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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)
0.1	1.5	GO:0004720	protein-lysine 6-oxidase activity(GO:0004720)
0.1	1.2	GO:0017070	U6 snRNA binding(GO:0017070)
0.0	1.1	GO:0004115	3',5'-cyclic-AMP phosphodiesterase activity(GO:0004115)
0.3	0.8	GO:0019777	Atg12 transferase activity(GO:0019777)
0.0	0.8	GO:0005212	structural constituent of eye lens(GO:0005212)
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	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	0.5	GO:0032050	clathrin heavy chain binding(GO:0032050)

Showing 1 to 10 of 10 entries

Gene overrepresentation in curated gene sets: canonical pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.3	5.9	PID WNT SIGNALING PATHWAY	Wnt signaling network
0.3	4.6	PID SMAD2 3PATHWAY	Regulation of cytoplasmic and nuclear SMAD2/3 signaling
0.0	0.5	PID ARF 3PATHWAY	Arf1 pathway

Showing 1 to 3 of 3 entries

Gene overrepresentation in curated gene sets: REACTOME pathways category:

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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	2.7	REACTOME ACTIVATION OF CHAPERONE GENES BY XBP1S	Genes involved in Activation of Chaperone Genes by XBP1(S)
0.1	1.2	REACTOME MRNA DECAY BY 5 TO 3 EXORIBONUCLEASE	Genes involved in mRNA Decay by 5' to 3' Exoribonuclease
0.1	1.1	REACTOME CGMP EFFECTS	Genes involved in cGMP effects
0.0	0.7	REACTOME UNWINDING OF DNA	Genes involved in Unwinding of DNA
0.1	0.5	REACTOME GAP JUNCTION DEGRADATION	Genes involved in Gap junction degradation

Showing 1 to 6 of 6 entries

Results for prdm4

Z-value: 0.37

Motif logo

Transcription factors associated with prdm4

Activity-expression correlation:

Activity profile of prdm4 motif

Sorted Z-values of prdm4 motif

Top targets:

Network of associatons between targets according to the STRING database.

First level regulatory network of prdm4

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Gene Ontology Analysis

Gene overrepresentation in biological process category:

Gene overrepresentation in cellular component category:

Gene overrepresentation in molecular function category:

Gene overrepresentation in curated gene sets: canonical pathways category:

Gene overrepresentation in curated gene sets: REACTOME pathways category: