ISMARA results: prdm4

Project

PRJNA438478: RNAseq of wild type zebrafish germline

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Results for prdm4

Z-value: 0.21

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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	0.91	1.1e-07	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
chr23_-_24682244 Show fit	0.63	ENSDART00000104035	ctdsp2 NCBI UniProt Show fit	CTD (carboxy-terminal domain, RNA polymerase II, polypeptide A) small phosphatase 2
chr3_+_31621774 Show fit	0.43	ENSDART00000076636	fzd2 NCBI UniProt Show fit	frizzled class receptor 2
chrM_+_9735 Show fit	0.41	ENSDART00000093613	mt-co3 NCBI UniProt Show fit	cytochrome c oxidase III, mitochondrial
chr10_-_3332362 Show fit	0.31	ENSDART00000007577 ENSDART00000055140	tor4aa NCBI UniProt Show fit	torsin family 4, member Aa
chr23_-_31400792 Show fit	0.24	ENSDART00000132736	lca5 NCBI UniProt Show fit	Leber congenital amaurosis 5
chr8_+_20679759 Show fit	0.20	ENSDART00000088668	nfic NCBI UniProt Show fit	nuclear factor I/C
chr9_+_22359919 Show fit	0.19	ENSDART00000009591	crygs4 NCBI UniProt Show fit	crystallin, gamma S4
chr3_+_32425202 Show fit	0.19	ENSDART00000156464	prr12b NCBI UniProt Show fit	proline rich 12b
chr10_-_9115383 Show fit	0.12	ENSDART00000139324	si:dkeyp-41f9.3 NCBI UniProt Show fit	si:dkeyp-41f9.3
chr4_-_2868112 Show fit	0.12	ENSDART00000133843	pde3a NCBI UniProt Show fit	phosphodiesterase 3A, cGMP-inhibited

Showing 1 to 10 of 20 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
0.1	0.4	GO:0061341	non-canonical Wnt signaling pathway involved in heart development(GO:0061341)
0.0	0.4	GO:0006123	mitochondrial electron transport, cytochrome c to oxygen(GO:0006123)
0.0	0.2	GO:0060282	positive regulation of oocyte development(GO:0060282)
0.0	0.1	GO:0035988	chondrocyte proliferation(GO:0035988)

Showing 1 to 4 of 4 entries

Gene overrepresentation in cellular component category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.0	0.4	GO:0045277	respiratory chain complex IV(GO:0045277)

Showing 1 to 1 of 1 entries

Gene overrepresentation in molecular function category:

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Total log-likelihood	Term	Description
0.4	GO:0008420	CTD phosphatase activity(GO:0008420)
0.4	GO:0042813	Wnt-activated receptor activity(GO:0042813)
0.4	GO:0004129	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	GO:2001070	starch binding(GO:2001070)

Showing 1 to 4 of 4 entries

Gene overrepresentation in curated gene sets: canonical pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.0	0.4	PID SMAD2 3PATHWAY	Regulation of cytoplasmic and nuclear SMAD2/3 signaling
0.0	0.4	PID WNT SIGNALING PATHWAY	Wnt signaling network

Showing 1 to 2 of 2 entries

Gene overrepresentation in curated gene sets: REACTOME pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.0	0.6	REACTOME ACTIVATION OF CHAPERONE GENES BY XBP1S	Genes involved in Activation of Chaperone Genes by XBP1(S)
0.0	0.2	REACTOME CGMP EFFECTS	Genes involved in cGMP effects

Showing 1 to 2 of 2 entries

Results for prdm4

Z-value: 0.21

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: