ISMARA results: sox5

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PRJNA438478: RNAseq of wild type zebrafish germline

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Results for sox5

Z-value: 0.96

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Transcription factors associated with sox5

Gene Symbol	Gene ID	Gene Info
sox5 NCBI UniProt	ENSDARG00000011582	SRY-box transcription factor 5

Activity-expression correlation:

Gene	Promoter	Pearson corr. coef.	P-value	Plot
sox5	dr11_v1_chr4_-_17055782_17055782	-0.54	2.0e-02	Click!

Activity profile of sox5 motif

Sorted Z-values of sox5 motif

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Promoter	Log-likelihood	Transcript	Gene	Gene Info
chr19_-_868187 Show fit	2.77	ENSDART00000186626	eomesa NCBI UniProt Show fit	eomesodermin homolog a
chr18_+_36066389 Show fit	2.22	ENSDART00000059347	bckdha NCBI UniProt Show fit	branched chain keto acid dehydrogenase E1, alpha polypeptide
chr19_+_10661520 Show fit	1.98	ENSDART00000091813 ENSDART00000165653	ago3b NCBI UniProt Show fit	argonaute RISC catalytic component 3b
chr2_+_32846602 Show fit	1.90	ENSDART00000056649	tmem53 NCBI UniProt Show fit	transmembrane protein 53
chr13_-_36844945 Show fit	1.69	ENSDART00000129562 ENSDART00000150899	nin NCBI UniProt Show fit	ninein (GSK3B interacting protein)
chr18_+_45571378 Show fit	1.68	ENSDART00000077251	kifc3 NCBI UniProt Show fit	kinesin family member C3
chr19_+_41479990 Show fit	1.60	ENSDART00000087187	ago2 NCBI UniProt Show fit	argonaute RISC catalytic component 2
chr17_+_28005763 Show fit	1.59	ENSDART00000155838	luzp1 NCBI UniProt Show fit	leucine zipper protein 1
chr9_-_14273652 Show fit	1.57	ENSDART00000135458	abcb6b NCBI UniProt Show fit	ATP-binding cassette, sub-family B (MDR/TAP), member 6b
chr23_+_30730121 Show fit	1.55	ENSDART00000134141	asxl1 NCBI UniProt Show fit	additional sex combs like transcriptional regulator 1

Showing 1 to 10 of 200 entries

Network of associatons between targets according to the STRING database.

First level regulatory network of sox5

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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
0.9	2.8	GO:0055109	invagination involved in gastrulation with mouth forming second(GO:0055109) morphogenesis of an epithelial fold(GO:0060571)
0.1	2.5	GO:0008078	mesodermal cell migration(GO:0008078)
0.1	2.2	GO:0009083	branched-chain amino acid catabolic process(GO:0009083)
0.0	2.1	GO:1990778	protein localization to plasma membrane(GO:0072659) protein localization to cell periphery(GO:1990778)
0.2	2.0	GO:0072091	regulation of stem cell proliferation(GO:0072091)
0.6	1.9	GO:0097095	frontonasal suture morphogenesis(GO:0097095)
0.0	1.8	GO:0043484	regulation of RNA splicing(GO:0043484)
0.3	1.7	GO:0034454	microtubule anchoring at centrosome(GO:0034454)
0.1	1.7	GO:0015693	magnesium ion transport(GO:0015693)
0.1	1.7	GO:0048570	notochord morphogenesis(GO:0048570)

Showing 1 to 10 of 97 entries

Gene overrepresentation in cellular component category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.4	3.6	GO:0031332	RISC complex(GO:0016442) RNAi effector complex(GO:0031332)
0.0	2.5	GO:0019005	SCF ubiquitin ligase complex(GO:0019005)
0.7	2.2	GO:0030062	mitochondrial alpha-ketoglutarate dehydrogenase complex(GO:0005947) mitochondrial tricarboxylic acid cycle enzyme complex(GO:0030062)
0.1	1.8	GO:0005921	gap junction(GO:0005921)
0.1	1.7	GO:0097431	mitotic spindle pole(GO:0097431)
0.0	1.7	GO:0005923	bicellular tight junction(GO:0005923) occluding junction(GO:0070160)
0.3	1.6	GO:0008385	IkappaB kinase complex(GO:0008385)
0.2	1.6	GO:0035517	PR-DUB complex(GO:0035517)
0.1	1.6	GO:0034361	very-low-density lipoprotein particle(GO:0034361)
0.2	1.4	GO:0034715	pICln-Sm protein complex(GO:0034715)

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
0.7	2.9	GO:0051059	NF-kappaB binding(GO:0051059)
0.2	2.2	GO:0016624	oxidoreductase activity, acting on the aldehyde or oxo group of donors, disulfide as acceptor(GO:0016624)
0.7	2.0	GO:0052717	tRNA-specific adenosine-34 deaminase activity(GO:0052717)
0.2	2.0	GO:0035198	miRNA binding(GO:0035198)
0.1	1.7	GO:0015095	magnesium ion transmembrane transporter activity(GO:0015095)
0.4	1.6	GO:0008384	IkappaB kinase activity(GO:0008384)
0.4	1.6	GO:0030228	lipoprotein particle receptor activity(GO:0030228)
0.4	1.6	GO:0070883	pre-miRNA binding(GO:0070883)
0.3	1.6	GO:0042975	peroxisome proliferator activated receptor binding(GO:0042975)
0.2	1.6	GO:0015232	heme transporter activity(GO:0015232)

Showing 1 to 10 of 69 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	2.0	PID TCR JNK PATHWAY	JNK signaling in the CD4+ TCR pathway
0.1	1.8	PID RANBP2 PATHWAY	Sumoylation by RanBP2 regulates transcriptional repression
0.1	1.8	PID ATM PATHWAY	ATM pathway
0.0	1.7	PID ECADHERIN STABILIZATION PATHWAY	Stabilization and expansion of the E-cadherin adherens junction
0.1	1.6	PID INTEGRIN4 PATHWAY	Alpha6 beta4 integrin-ligand interactions
0.1	1.6	PID TOLL ENDOGENOUS PATHWAY	Endogenous TLR signaling
0.1	1.6	PID REELIN PATHWAY	Reelin signaling pathway
0.0	1.3	PID BMP PATHWAY	BMP receptor signaling
0.0	1.3	PID MTOR 4PATHWAY	mTOR signaling pathway
0.1	1.1	PID S1P S1P2 PATHWAY	S1P2 pathway

Showing 1 to 10 of 20 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	3.6	REACTOME DOWNREGULATION OF SMAD2 3 SMAD4 TRANSCRIPTIONAL ACTIVITY	Genes involved in Downregulation of SMAD2/3:SMAD4 transcriptional activity
0.2	2.2	REACTOME SIGNAL ATTENUATION	Genes involved in Signal attenuation
0.1	2.2	REACTOME BRANCHED CHAIN AMINO ACID CATABOLISM	Genes involved in Branched-chain amino acid catabolism
0.0	1.7	REACTOME ASSOCIATION OF TRIC CCT WITH TARGET PROTEINS DURING BIOSYNTHESIS	Genes involved in Association of TriC/CCT with target proteins during biosynthesis
0.2	1.6	REACTOME IKK COMPLEX RECRUITMENT MEDIATED BY RIP1	Genes involved in IKK complex recruitment mediated by RIP1
0.1	1.4	REACTOME BILE SALT AND ORGANIC ANION SLC TRANSPORTERS	Genes involved in Bile salt and organic anion SLC transporters
0.2	1.3	REACTOME REGULATION OF THE FANCONI ANEMIA PATHWAY	Genes involved in Regulation of the Fanconi anemia pathway
0.0	1.3	REACTOME PIP3 ACTIVATES AKT SIGNALING	Genes involved in PIP3 activates AKT signaling
0.1	1.2	REACTOME SYNTHESIS OF PA	Genes involved in Synthesis of PA
0.0	1.2	REACTOME INTEGRIN CELL SURFACE INTERACTIONS	Genes involved in Integrin cell surface interactions

Showing 1 to 10 of 27 entries

Results for sox5

Z-value: 0.96

Motif logo

Transcription factors associated with sox5

Activity-expression correlation:

Activity profile of sox5 motif

Sorted Z-values of sox5 motif

Top targets:

Network of associatons between targets according to the STRING database.

First level regulatory network of sox5

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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: