ISMARA results: xbp1

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PRJNA438478: RNAseq of wild type zebrafish germline

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Results for xbp1

Z-value: 1.77

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Transcription factors associated with xbp1

Gene Symbol	Gene ID	Gene Info
xbp1 NCBI UniProt	ENSDARG00000035622	X-box binding protein 1

Activity-expression correlation:

Gene	Promoter	Pearson corr. coef.	P-value	Plot
xbp1	dr11_v1_chr5_-_15948833_15948920	0.92	5.8e-08	Click!

Activity profile of xbp1 motif

Sorted Z-values of xbp1 motif

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Promoter	Log-likelihood	Transcript	Gene	Gene Info
chr21_+_10702031 Show fit	4.25	ENSDART00000102304	lman1 NCBI UniProt Show fit	lectin, mannose-binding, 1
chr21_+_10701834 Show fit	4.18	ENSDART00000192473	lman1 NCBI UniProt Show fit	lectin, mannose-binding, 1
chr12_-_990149 Show fit	4.18	ENSDART00000054367	kdelr2b NCBI UniProt Show fit	KDEL (Lys-Asp-Glu-Leu) endoplasmic reticulum protein retention receptor 2b
chr16_+_27224369 Show fit	2.96	ENSDART00000136980	sec61b NCBI UniProt Show fit	Sec61 translocon beta subunit
chr12_+_10116912 Show fit	2.87	ENSDART00000189630	si:dkeyp-118b1.2 NCBI UniProt Show fit	si:dkeyp-118b1.2
chr11_+_45286911 Show fit	2.85	ENSDART00000181763	pycr1b NCBI UniProt Show fit	pyrroline-5-carboxylate reductase 1b
chr3_+_28860283 Show fit	2.53	ENSDART00000077235	alg1 NCBI UniProt Show fit	ALG1, chitobiosyldiphosphodolichol beta-mannosyltransferase
chr10_-_34915886 Show fit	2.51	ENSDART00000141201 ENSDART00000002166	ccna1 NCBI UniProt Show fit	cyclin A1
chr11_-_6420917 Show fit	2.40	ENSDART00000193717	FO681393.2 NCBI UniProt Show fit
chr24_+_14214831 Show fit	2.36	ENSDART00000004664	tram1 NCBI UniProt Show fit	translocation associated membrane protein 1

Showing 1 to 10 of 200 entries

Network of associatons between targets according to the STRING database.

First level regulatory network of xbp1

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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	13.2	GO:0071391	cellular response to estrogen stimulus(GO:0071391)
1.6	8.2	GO:0006011	UDP-glucose metabolic process(GO:0006011)
0.9	8.0	GO:0055129	proline biosynthetic process(GO:0006561) L-proline biosynthetic process(GO:0055129)
0.9	6.4	GO:0031204	posttranslational protein targeting to membrane, translocation(GO:0031204)
0.1	4.7	GO:0006890	retrograde vesicle-mediated transport, Golgi to ER(GO:0006890)
0.6	4.4	GO:0006621	protein retention in ER lumen(GO:0006621)
0.1	3.6	GO:0036269	swimming behavior(GO:0036269)
0.2	3.4	GO:0071577	zinc II ion transmembrane transport(GO:0071577)
0.7	2.7	GO:0051645	Golgi localization(GO:0051645)
0.0	2.5	GO:1904029	regulation of cyclin-dependent protein serine/threonine kinase activity(GO:0000079) regulation of cyclin-dependent protein kinase activity(GO:1904029)

Showing 1 to 10 of 87 entries

Gene overrepresentation in cellular component category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.2	10.5	GO:0005793	endoplasmic reticulum-Golgi intermediate compartment(GO:0005793)
0.6	8.4	GO:0030663	COPI-coated vesicle membrane(GO:0030663)
0.0	8.0	GO:0005789	endoplasmic reticulum membrane(GO:0005789)
1.1	6.4	GO:0005784	Sec61 translocon complex(GO:0005784)
0.0	4.4	GO:0031201	SNARE complex(GO:0031201)
0.0	2.6	GO:0030176	integral component of endoplasmic reticulum membrane(GO:0030176)
0.8	2.5	GO:0097124	cyclin A2-CDK2 complex(GO:0097124)
0.1	2.4	GO:0035861	site of double-strand break(GO:0035861)
0.0	2.2	GO:0030141	secretory granule(GO:0030141)
0.4	2.1	GO:0070876	SOSS complex(GO:0070876)

Showing 1 to 10 of 42 entries

Gene overrepresentation in molecular function category:

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Log-likelihood per target	Total log-likelihood	Term	Description
0.6	8.4	GO:0005537	mannose binding(GO:0005537)
1.6	8.2	GO:0051748	UTP:glucose-1-phosphate uridylyltransferase activity(GO:0003983) UTP-monosaccharide-1-phosphate uridylyltransferase activity(GO:0051748)
0.1	5.3	GO:0005484	SNAP receptor activity(GO:0005484)
1.0	4.8	GO:0004735	pyrroline-5-carboxylate reductase activity(GO:0004735)
1.5	4.4	GO:0046923	ER retention sequence binding(GO:0046923)
0.2	3.5	GO:0008320	protein transmembrane transporter activity(GO:0008320)
0.1	3.4	GO:0005385	zinc ion transmembrane transporter activity(GO:0005385)
0.6	3.2	GO:0016774	phosphotransferase activity, carboxyl group as acceptor(GO:0016774)
0.1	2.5	GO:0000030	mannosyltransferase activity(GO:0000030)
0.0	2.5	GO:0016538	cyclin-dependent protein serine/threonine kinase regulator activity(GO:0016538)

Showing 1 to 10 of 64 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	9.4	PID TCPTP PATHWAY	Signaling events mediated by TCPTP
0.2	2.5	SA REG CASCADE OF CYCLIN EXPR	Expression of cyclins regulates progression through the cell cycle by activating cyclin-dependent kinases.
0.0	1.7	PID CMYB PATHWAY	C-MYB transcription factor network
0.1	1.5	PID ARF 3PATHWAY	Arf1 pathway
0.0	1.3	PID P53 DOWNSTREAM PATHWAY	Direct p53 effectors
0.0	1.1	PID SYNDECAN 1 PATHWAY	Syndecan-1-mediated signaling events
0.0	1.0	PID ERA GENOMIC PATHWAY	Validated nuclear estrogen receptor alpha network
0.1	0.9	PID ERBB NETWORK PATHWAY	ErbB receptor signaling network
0.0	0.6	PID CIRCADIAN PATHWAY	Circadian rhythm pathway
0.0	0.5	PID IL8 CXCR2 PATHWAY	IL8- and CXCR2-mediated signaling events

Showing 1 to 10 of 14 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	13.9	REACTOME SRP DEPENDENT COTRANSLATIONAL PROTEIN TARGETING TO MEMBRANE	Genes involved in SRP-dependent cotranslational protein targeting to membrane
0.2	7.9	REACTOME TRANSPORT TO THE GOLGI AND SUBSEQUENT MODIFICATION	Genes involved in Transport to the Golgi and subsequent modification
0.1	4.1	REACTOME BIOSYNTHESIS OF THE N GLYCAN PRECURSOR DOLICHOL LIPID LINKED OLIGOSACCHARIDE LLO AND TRANSFER TO A NASCENT PROTEIN	Genes involved in Biosynthesis of the N-glycan precursor (dolichol lipid-linked oligosaccharide, LLO) and transfer to a nascent protein
0.3	3.2	REACTOME AMINO ACID SYNTHESIS AND INTERCONVERSION TRANSAMINATION	Genes involved in Amino acid synthesis and interconversion (transamination)
0.2	2.7	REACTOME CYCLIN A B1 ASSOCIATED EVENTS DURING G2 M TRANSITION	Genes involved in Cyclin A/B1 associated events during G2/M transition
0.2	2.2	REACTOME ZINC TRANSPORTERS	Genes involved in Zinc transporters
0.0	2.2	REACTOME METABOLISM OF VITAMINS AND COFACTORS	Genes involved in Metabolism of vitamins and cofactors
0.1	2.1	REACTOME KERATAN SULFATE BIOSYNTHESIS	Genes involved in Keratan sulfate biosynthesis
0.1	2.0	REACTOME TRANSPORT OF VITAMINS NUCLEOSIDES AND RELATED MOLECULES	Genes involved in Transport of vitamins, nucleosides, and related molecules
0.2	1.7	REACTOME COPI MEDIATED TRANSPORT	Genes involved in COPI Mediated Transport

Showing 1 to 10 of 27 entries

Results for xbp1

Z-value: 1.77

Motif logo

Transcription factors associated with xbp1

Activity-expression correlation:

Activity profile of xbp1 motif

Sorted Z-values of xbp1 motif

Top targets:

Network of associatons between targets according to the STRING database.

First level regulatory network of xbp1

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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: