ISMARA results: scrt1a+scrt1b+scrt2

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PRJNA438478: RNAseq of wild type zebrafish germline

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Results for scrt1a+scrt1b+scrt2

Z-value: 1.09

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Transcription factors associated with scrt1a+scrt1b+scrt2

Gene Symbol	Gene ID	Gene Info
scrt1b NCBI UniProt	ENSDARG00000040214	scratch family zinc finger 1b
scrt2 NCBI UniProt	ENSDARG00000056175	scratch family zinc finger 2
scrt1a NCBI UniProt	ENSDARG00000100821	scratch family zinc finger 1a
scrt1b NCBI UniProt	ENSDARG00000110984	scratch family zinc finger 1b

Activity-expression correlation:

Gene	Promoter	Pearson corr. coef.	P-value	Plot
scrt1a	dr11_v1_chr19_+_1184878_1184878	0.38	1.2e-01	Click!
scrt1b	dr11_v1_chr16_-_31188715_31188715	0.17	5.0e-01	Click!
scrt2	dr11_v1_chr8_+_28527776_28527776	-0.16	5.2e-01	Click!

Activity profile of scrt1a+scrt1b+scrt2 motif

Sorted Z-values of scrt1a+scrt1b+scrt2 motif

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Promoter	Log-likelihood	Transcript	Gene	Gene Info
chr19_+_7636941 Show fit	2.53	ENSDART00000081611 ENSDART00000163805 ENSDART00000112404	cgnb NCBI UniProt Show fit	cingulin b
chr6_+_46309795 Show fit	2.42	ENSDART00000154817	si:dkeyp-67f1.1 NCBI UniProt Show fit	si:dkeyp-67f1.1
chr13_-_36844945 Show fit	2.15	ENSDART00000129562 ENSDART00000150899	nin NCBI UniProt Show fit	ninein (GSK3B interacting protein)
chr16_-_43233509 Show fit	1.84	ENSDART00000025877	cldn12 NCBI UniProt Show fit	claudin 12
chr21_-_30994577 Show fit	1.80	ENSDART00000065503	pgap2 NCBI UniProt Show fit	post-GPI attachment to proteins 2
chr25_+_27937585 Show fit	1.80	ENSDART00000151994	cadps2 NCBI UniProt Show fit	Ca++-dependent secretion activator 2
chr13_+_8840772 Show fit	1.78	ENSDART00000059321	epcam NCBI UniProt Show fit	epithelial cell adhesion molecule
chr5_-_48664522 Show fit	1.77	ENSDART00000083229	mblac2 NCBI UniProt Show fit	metallo-beta-lactamase domain containing 2
chr25_+_27937789 Show fit	1.76	ENSDART00000023890	cadps2 NCBI UniProt Show fit	Ca++-dependent secretion activator 2
chr17_-_30521043 Show fit	1.66	ENSDART00000087111	itsn2b NCBI UniProt Show fit	intersectin 2b

Showing 1 to 10 of 119 entries

Network of associatons between targets according to the STRING database.

First level regulatory network of scrt1a+scrt1b+scrt2

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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
0.3	3.4	GO:1990504	dense core granule exocytosis(GO:1990504)
0.0	2.9	GO:0006887	exocytosis(GO:0006887)
0.1	2.6	GO:0090557	establishment of endothelial intestinal barrier(GO:0090557)
0.4	2.2	GO:0034454	microtubule anchoring at centrosome(GO:0034454)
0.0	2.1	GO:0035335	peptidyl-tyrosine dephosphorylation(GO:0035335)
0.2	1.9	GO:0021550	medulla oblongata development(GO:0021550) dorsal motor nucleus of vagus nerve development(GO:0021744)
0.1	1.8	GO:0006506	GPI anchor biosynthetic process(GO:0006506)
0.5	1.6	GO:0021531	spinal cord radial glial cell differentiation(GO:0021531)
0.0	1.5	GO:0048920	posterior lateral line neuromast primordium migration(GO:0048920)
0.1	1.4	GO:0098869	response to superoxide(GO:0000303) response to oxygen radical(GO:0000305) removal of superoxide radicals(GO:0019430) cellular response to oxygen radical(GO:0071450) cellular response to superoxide(GO:0071451) cellular oxidant detoxification(GO:0098869) cellular detoxification(GO:1990748)

Showing 1 to 10 of 38 entries

Gene overrepresentation in cellular component category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.1	7.0	GO:0005923	bicellular tight junction(GO:0005923) occluding junction(GO:0070160)
0.1	3.5	GO:0098978	glutamatergic synapse(GO:0098978)
0.2	2.2	GO:0097431	mitotic spindle pole(GO:0097431)
0.0	1.8	GO:0016323	basolateral plasma membrane(GO:0016323)
0.0	1.7	GO:0005905	clathrin-coated pit(GO:0005905)
0.3	1.4	GO:0008091	spectrin(GO:0008091)
0.0	1.3	GO:0036064	ciliary basal body(GO:0036064)
0.0	1.1	GO:0031901	early endosome membrane(GO:0031901)
0.0	1.1	GO:0030141	secretory granule(GO:0030141)
0.0	0.9	GO:0031201	SNARE complex(GO:0031201)

Showing 1 to 10 of 14 entries

Gene overrepresentation in molecular function category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.0	5.2	GO:0005085	guanyl-nucleotide exchange factor activity(GO:0005085)
0.0	2.9	GO:0003774	motor activity(GO:0003774)
0.0	2.3	GO:0050839	cell adhesion molecule binding(GO:0050839)
0.0	1.9	GO:0017075	syntaxin-1 binding(GO:0017075)
0.1	1.6	GO:0005112	Notch binding(GO:0005112)
0.1	1.5	GO:0036312	phosphatidylinositol 3-kinase regulatory subunit binding(GO:0036312)
0.1	1.5	GO:0042043	neurexin family protein binding(GO:0042043)
0.2	1.4	GO:0008379	thioredoxin peroxidase activity(GO:0008379)
0.0	1.4	GO:0005200	structural constituent of cytoskeleton(GO:0005200)
0.3	1.3	GO:0061629	RNA polymerase II sequence-specific DNA binding transcription factor binding(GO:0061629)

Showing 1 to 10 of 33 entries

Gene overrepresentation in curated gene sets: canonical pathways category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.1	2.2	PID CDC42 REG PATHWAY	Regulation of CDC42 activity
0.1	1.5	PID EPHRINB REV PATHWAY	Ephrin B reverse signaling
0.0	1.4	ST B CELL ANTIGEN RECEPTOR	B Cell Antigen Receptor
0.1	1.1	PID RXR VDR PATHWAY	RXR and RAR heterodimerization with other nuclear receptor
0.1	1.0	PID LPA4 PATHWAY	LPA4-mediated signaling events
0.1	0.9	PID P38 GAMMA DELTA PATHWAY	Signaling mediated by p38-gamma and p38-delta
0.0	0.8	PID TELOMERASE PATHWAY	Regulation of Telomerase
0.0	0.7	PID ARF6 TRAFFICKING PATHWAY	Arf6 trafficking events
0.0	0.4	PID SYNDECAN 4 PATHWAY	Syndecan-4-mediated signaling events
0.0	0.4	PID FRA PATHWAY	Validated transcriptional targets of AP1 family members Fra1 and Fra2

Showing 1 to 10 of 13 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	1.8	REACTOME TIGHT JUNCTION INTERACTIONS	Genes involved in Tight junction interactions
0.1	1.4	REACTOME INTERACTION BETWEEN L1 AND ANKYRINS	Genes involved in Interaction between L1 and Ankyrins
0.2	1.2	REACTOME DSCAM INTERACTIONS	Genes involved in DSCAM interactions
0.0	1.1	REACTOME PIP3 ACTIVATES AKT SIGNALING	Genes involved in PIP3 activates AKT signaling
0.1	1.0	REACTOME ADENYLATE CYCLASE ACTIVATING PATHWAY	Genes involved in Adenylate cyclase activating pathway
0.0	0.7	REACTOME O LINKED GLYCOSYLATION OF MUCINS	Genes involved in O-linked glycosylation of mucins
0.0	0.4	REACTOME OTHER SEMAPHORIN INTERACTIONS	Genes involved in Other semaphorin interactions
0.0	0.4	REACTOME HS GAG BIOSYNTHESIS	Genes involved in HS-GAG biosynthesis
0.0	0.2	REACTOME VEGF LIGAND RECEPTOR INTERACTIONS	Genes involved in VEGF ligand-receptor interactions

Showing 1 to 9 of 9 entries

Results for scrt1a+scrt1b+scrt2

Z-value: 1.09

Motif logo

Transcription factors associated with scrt1a+scrt1b+scrt2

Activity-expression correlation:

Activity profile of scrt1a+scrt1b+scrt2 motif

Sorted Z-values of scrt1a+scrt1b+scrt2 motif

Top targets:

Network of associatons between targets according to the STRING database.

First level regulatory network of scrt1a+scrt1b+scrt2

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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: