ISMARA results: hoxa4a+hoxc3a

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PRJNA438478: RNAseq of wild type zebrafish germline

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Results for hoxa4a+hoxc3a

Z-value: 0.89

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Transcription factors associated with hoxa4a+hoxc3a

Gene Symbol	Gene ID	Gene Info
hoxc3a NCBI UniProt	ENSDARG00000070339	homeobox C3a
hoxa4a NCBI UniProt	ENSDARG00000103862	homeobox A4a

Activity-expression correlation:

Gene	Promoter	Pearson corr. coef.	P-value	Plot
hoxa3a	dr11_v1_chr19_+_19767567_19767567	-0.63	4.9e-03	Click!
hoxc3a	dr11_v1_chr23_+_36144487_36144487	-0.58	1.1e-02	Click!

Activity profile of hoxa4a+hoxc3a motif

Sorted Z-values of hoxa4a+hoxc3a motif

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Promoter	Log-likelihood	Transcript	Gene	Gene Info
chr18_-_40708537 Show fit	2.70	ENSDART00000077577	si:ch211-132b12.8 NCBI UniProt Show fit	si:ch211-132b12.8
chr9_+_44994214 Show fit	2.55	ENSDART00000141434	retsatl NCBI UniProt Show fit	retinol saturase (all-trans-retinol 13,14-reductase) like
chr10_-_21362071 Show fit	2.07	ENSDART00000125167	avd NCBI UniProt Show fit	avidin
chr2_+_6253246 Show fit	1.96	ENSDART00000058256 ENSDART00000076700	zp3b NCBI UniProt Show fit	zona pellucida glycoprotein 3b
chr10_-_21362320 Show fit	1.95	ENSDART00000189789	avd NCBI UniProt Show fit	avidin
chr21_+_25777425 Show fit	1.90	ENSDART00000021620	cldnd NCBI UniProt Show fit	claudin d
chr20_-_23426339 Show fit	1.86	ENSDART00000004625	zar1 NCBI UniProt Show fit	zygote arrest 1
chr6_+_7414215 Show fit	1.82	ENSDART00000049339	sox21a NCBI UniProt Show fit	SRY (sex determining region Y)-box 21a
chr9_-_35633827 Show fit	1.80	ENSDART00000077745	zp2l1 NCBI UniProt Show fit	zona pellucida glycoprotein 2, like 1
chr8_-_23780334 Show fit	1.79	ENSDART00000145179 ENSDART00000145894	zgc:195245 NCBI UniProt Show fit	zgc:195245

Showing 1 to 10 of 200 entries

Network of associatons between targets according to the STRING database.

First level regulatory network of hoxa4a+hoxc3a

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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
0.2	3.4	GO:0060046	binding of sperm to zona pellucida(GO:0007339) egg coat formation(GO:0035803) regulation of acrosome reaction(GO:0060046) positive regulation of acrosome reaction(GO:2000344)
0.0	3.0	GO:0008203	cholesterol metabolic process(GO:0008203)
1.0	2.9	GO:0043654	recognition of apoptotic cell(GO:0043654)
0.1	2.3	GO:0042761	very long-chain fatty acid biosynthetic process(GO:0042761)
0.4	1.9	GO:0016338	calcium-independent cell-cell adhesion via plasma membrane cell-adhesion molecules(GO:0016338)
0.0	1.9	GO:0048545	response to steroid hormone(GO:0048545)
0.0	1.9	GO:0017148	negative regulation of translation(GO:0017148)
0.1	1.6	GO:0051014	actin filament severing(GO:0051014)
0.1	1.5	GO:0043928	exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay(GO:0043928)
0.5	1.4	GO:0000212	meiotic spindle organization(GO:0000212)

Showing 1 to 10 of 83 entries

Gene overrepresentation in cellular component category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.0	4.0	GO:0031012	extracellular matrix(GO:0031012)
0.2	3.2	GO:0034361	very-low-density lipoprotein particle(GO:0034361)
0.1	2.7	GO:0044853	caveola(GO:0005901) plasma membrane raft(GO:0044853)
0.4	1.8	GO:0055087	Ski complex(GO:0055087)
0.0	1.7	GO:0005759	mitochondrial matrix(GO:0005759)
0.5	1.4	GO:0031166	integral component of vacuolar membrane(GO:0031166) intrinsic component of vacuolar membrane(GO:0031310)
0.0	1.3	GO:0005876	spindle microtubule(GO:0005876)
0.0	1.3	GO:0045271	mitochondrial respiratory chain complex I(GO:0005747) NADH dehydrogenase complex(GO:0030964) respiratory chain complex I(GO:0045271)
0.0	1.0	GO:0001726	ruffle(GO:0001726)
0.0	1.0	GO:0030173	integral component of Golgi membrane(GO:0030173) intrinsic component of Golgi membrane(GO:0031228)

Showing 1 to 10 of 37 entries

Gene overrepresentation in molecular function category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.8	4.0	GO:0009374	biotin binding(GO:0009374)
0.2	3.4	GO:0032190	acrosin binding(GO:0032190)
0.8	3.2	GO:0030228	lipoprotein particle receptor activity(GO:0030228)
0.7	2.9	GO:0030169	low-density lipoprotein particle binding(GO:0030169)
0.0	2.0	GO:0016627	oxidoreductase activity, acting on the CH-CH group of donors(GO:0016627)
0.1	1.4	GO:0043027	cysteine-type endopeptidase inhibitor activity involved in apoptotic process(GO:0043027) cysteine-type endopeptidase regulator activity involved in apoptotic process(GO:0043028)
0.0	1.4	GO:0003727	single-stranded RNA binding(GO:0003727)
0.4	1.3	GO:0005093	Rab GDP-dissociation inhibitor activity(GO:0005093)
0.1	1.3	GO:0015129	lactate transmembrane transporter activity(GO:0015129)
0.1	1.2	GO:0008494	translation activator activity(GO:0008494)

Showing 1 to 10 of 56 entries

Gene overrepresentation in curated gene sets: canonical pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.2	3.2	PID REELIN PATHWAY	Reelin signaling pathway
0.1	1.6	SIG REGULATION OF THE ACTIN CYTOSKELETON BY RHO GTPASES	Genes related to regulation of the actin cytoskeleton
0.1	0.9	PID TCR CALCIUM PATHWAY	Calcium signaling in the CD4+ TCR pathway
0.0	0.9	PID AURORA A PATHWAY	Aurora A signaling
0.0	0.5	PID KIT PATHWAY	Signaling events mediated by Stem cell factor receptor (c-Kit)
0.0	0.4	NABA COLLAGENS	Genes encoding collagen proteins
0.0	0.2	PID INSULIN GLUCOSE PATHWAY	Insulin-mediated glucose transport

Showing 1 to 7 of 7 entries

Gene overrepresentation in curated gene sets: REACTOME pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.2	2.9	REACTOME HDL MEDIATED LIPID TRANSPORT	Genes involved in HDL-mediated lipid transport
0.1	1.7	REACTOME SMOOTH MUSCLE CONTRACTION	Genes involved in Smooth Muscle Contraction
0.0	1.7	REACTOME RESPONSE TO ELEVATED PLATELET CYTOSOLIC CA2	Genes involved in Response to elevated platelet cytosolic Ca2+
0.1	1.3	REACTOME BILE SALT AND ORGANIC ANION SLC TRANSPORTERS	Genes involved in Bile salt and organic anion SLC transporters
0.0	1.3	REACTOME RESPIRATORY ELECTRON TRANSPORT	Genes involved in Respiratory electron transport
0.1	1.2	REACTOME INTRINSIC PATHWAY	Genes involved in Intrinsic Pathway
0.1	0.9	REACTOME TERMINATION OF O GLYCAN BIOSYNTHESIS	Genes involved in Termination of O-glycan biosynthesis
0.0	0.9	REACTOME RNA POL I TRANSCRIPTION TERMINATION	Genes involved in RNA Polymerase I Transcription Termination
0.1	0.7	REACTOME TETRAHYDROBIOPTERIN BH4 SYNTHESIS RECYCLING SALVAGE AND REGULATION	Genes involved in Tetrahydrobiopterin (BH4) synthesis, recycling, salvage and regulation
0.0	0.6	REACTOME GABA A RECEPTOR ACTIVATION	Genes involved in GABA A receptor activation

Showing 1 to 10 of 22 entries

Results for hoxa4a+hoxc3a

Z-value: 0.89

Motif logo

Transcription factors associated with hoxa4a+hoxc3a

Activity-expression correlation:

Activity profile of hoxa4a+hoxc3a motif

Sorted Z-values of hoxa4a+hoxc3a motif

Top targets:

Network of associatons between targets according to the STRING database.

First level regulatory network of hoxa4a+hoxc3a

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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: