MCL coexpression mm9:151

Phase1 CAGE Peaks

	Short description
Mm9::chr10:117229719..117229773,-	p1@Nup107
Mm9::chr10:127452242..127452287,+	p1@Prim1
Mm9::chr10:127452290..127452305,+	p2@Prim1
Mm9::chr10:127669128..127669150,+	p1@LOC100504989 p1@Timeless
Mm9::chr10:20067594..20067665,+	p1@Fam54a
Mm9::chr10:29920298..29920348,-	p1@Cenpw
Mm9::chr10:29920353..29920379,-	p2@Cenpw
Mm9::chr10:62409759..62409821,+	p1@Dna2
Mm9::chr10:79317363..79317385,+	p2@Ptbp1
Mm9::chr10:87609740..87609782,+	p1@LOC634555 p1@Nup37
Mm9::chr11:120459660..120459719,-	p1@Alyref
Mm9::chr12:107248485..107248549,+	p1@Vrk1
Mm9::chr12:80398332..80398364,+	p1@Rad51l1
Mm9::chr13:101545758..101545798,-	p2@Cenph
Mm9::chr13:93125141..93125165,+	p1@Dhfr
Mm9::chr13:93125167..93125172,+	p5@Dhfr
Mm9::chr13:93125194..93125203,+	p4@Dhfr
Mm9::chr15:102126687..102126761,+	p1@Espl1
Mm9::chr15:54921977..54922051,-	p1@Dscc1
Mm9::chr15:76470328..76470382,-	p1@Tonsl
Mm9::chr15:76540916..76540941,-	p1@Recql4
Mm9::chr16:23127775..23127819,-	p1@Rfc4
Mm9::chr16:4719078..4719126,-	p1@Nmral1
Mm9::chr16:93884140..93884199,+	p1@Chaf1b
Mm9::chr17:46633702..46633758,+	p1@BC048355
Mm9::chr17:56442819..56442841,+	p2@Uhrf1
Mm9::chr17:56442850..56442890,+	p1@Uhrf1
Mm9::chr19:39005438..39005458,+	p1@Hells
Mm9::chr19:5964132..5964210,-	p1@Pola2
Mm9::chr1:130256174..130256186,-	p2@Mcm6
Mm9::chr1:130256187..130256275,-	p1@Mcm6
Mm9::chr1:193399369..193399405,-	p1@Dtl
Mm9::chr1:20810294..20810367,-	p1@Mcm3
Mm9::chr1:33726573..33726584,-	p3@Prim2
Mm9::chr1:95698417..95698522,-	p1@Dtymk
Mm9::chr2:125073445..125073479,+	p1@Dut
Mm9::chr2:132078910..132078953,-	p1@Pcna
Mm9::chr2:150735301..150735378,+	p1@Gins1
Mm9::chr2:156832751..156832774,-	p3@Dsn1
Mm9::chr2:72314230..72314269,+	p1@Cdca7
Mm9::chr2:84877326..84877362,+	p2@Ssrp1
Mm9::chr3:32607592..32607660,+	p1@Actl6a
Mm9::chr3:88214217..88214273,-	p1@Pmf1
Mm9::chr4:115796223..115796300,-	p1@Rad54l
Mm9::chr4:130037406..130037455,+	p1@Snrnp40
Mm9::chr4:132324240..132324305,+	p1@Rpa2
Mm9::chr4:24423581..24423646,+	p1@Mms22l
Mm9::chr4:46463952..46463983,+	p2@Anp32b
Mm9::chr4:46463990..46463998,+	p4@Anp32b
Mm9::chr5:110715345..110715410,+	p1@Pole
Mm9::chr5:138613050..138613061,-	p3@Mcm7
Mm9::chr5:138613072..138613115,-	p1@Mcm7
Mm9::chr5:149864614..149864629,-	p1@Gm6115 p1@Hmgb1 p1@LOC637733
Mm9::chr5:149864636..149864647,-	p4@Gm6115 p4@LOC637733 p5@Hmgb1
Mm9::chr5:151325174..151325212,+	p2@Brca2
Mm9::chr5:152453731..152453788,-	p1@Rfc3
Mm9::chr5:25211581..25211605,-	p2@Xrcc2
Mm9::chr5:30400094..30400149,-	p1@Tyms
Mm9::chr5:8422642..8422693,-	p1@Dbf4
Mm9::chr7:137690787..137690864,-	p1@Nsmce4a
Mm9::chr7:147222155..147222217,-	p2@Tubgcp2
Mm9::chr7:31449960..31450003,-	p1@Haus5
Mm9::chr7:51804120..51804203,-	p1@Pold1
Mm9::chr8:125091901..125091920,+	p2@Cdt1
Mm9::chr8:125091921..125091960,+	p1@Cdt1
Mm9::chr8:77633458..77633500,+	p1@Mcm5
Mm9::chr9:103207486..103207585,+	p1@Topbp1
Mm9::chr9:107853283..107853322,+	p1@Traip
Mm9::chr9:14589162..14589202,+	p2@Mre11a
Mm9::chr9:21564719..21564738,-	p1@Spc24
Mm9::chr9:21564742..21564760,-	p2@Spc24
Mm9::chr9:64129382..64129437,+	p1@Tipin
Mm9::chrX:7651696..7651752,-	p1@Suv39h1

Enriched pathways on this co-expression cluster<b>Summary:</b><br>Canonical pathway gene sets were compiled from Reactome, Wikipathways and KEGG. For the major signaling pathways, the transcriptionally-regulated genes (downstream targets) were obtained from Netpath. Combined, the canonical pathways and downstream targets totaled 489 human gene sets. The corresponding M. musculus gene sets were inferred by homology using the HomoloGene database. Enrichment for each of the canonical 489 pathways and gene sets included in the co-expression cluster was assessed by the hypergeometric probability. The resulting P values were also then adjusted by the Benjamini-Hochberg method for multiple comparisons.<br><b>Analyst: </b>Emmanuel Dimont<br><br>link to source dataset<br>data

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GO ID	GO name	FDR corrected p-value
GO:0006259	DNA metabolic process	3.15330458288618e-29
GO:0006260	DNA replication	4.67286915465219e-28
GO:0005634	nucleus	3.02905470989514e-27
GO:0006139	nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	5.40163738216021e-26
GO:0006261	DNA-dependent DNA replication	3.48768500926499e-15
GO:0006974	response to DNA damage stimulus	9.59888059389555e-14
GO:0043231	intracellular membrane-bound organelle	1.55523747148963e-13
GO:0043227	membrane-bound organelle	1.55523747148963e-13
GO:0009719	response to endogenous stimulus	1.9269433197973e-13
GO:0007049	cell cycle	4.51885055575174e-13
GO:0043283	biopolymer metabolic process	1.09120538839064e-12
GO:0006281	DNA repair	3.40935821279336e-12
GO:0043229	intracellular organelle	7.4759722734738e-12
GO:0043226	organelle	7.4759722734738e-12
GO:0022403	cell cycle phase	8.92273666493073e-12
GO:0008094	DNA-dependent ATPase activity	7.53249373032802e-11
GO:0003677	DNA binding	3.47431366316725e-10
GO:0044238	primary metabolic process	2.39384059447584e-09
GO:0044237	cellular metabolic process	2.6730337523508e-09
GO:0044424	intracellular part	4.58996025933372e-09
GO:0006270	DNA replication initiation	5.93370041819232e-09
GO:0000278	mitotic cell cycle	9.73059964308855e-09
GO:0043170	macromolecule metabolic process	1.20392958804383e-08
GO:0000279	M phase	1.20392958804383e-08
GO:0005622	intracellular	1.69463150750947e-08
GO:0022402	cell cycle process	3.8017592101679e-08
GO:0003676	nucleic acid binding	3.90710750470063e-08
GO:0005694	chromosome	4.41308356647323e-08
GO:0005657	replication fork	8.93675976906425e-08
GO:0006950	response to stress	1.1074446469447e-07
GO:0044427	chromosomal part	1.15929074018689e-07
GO:0016779	nucleotidyltransferase activity	2.34027870778727e-07
GO:0006310	DNA recombination	7.6252390310501e-07
GO:0000166	nucleotide binding	9.03616413698726e-07
GO:0005658	alpha DNA polymerase:primase complex	1.11408830143144e-06
GO:0007059	chromosome segregation	2.20925730743541e-06
GO:0042623	ATPase activity, coupled	2.20925730743541e-06
GO:0051301	cell division	2.90409136668118e-06
GO:0016462	pyrophosphatase activity	6.03470808329226e-06
GO:0016818	hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides	6.05610950206653e-06
GO:0016887	ATPase activity	6.05610950206653e-06
GO:0016817	hydrolase activity, acting on acid anhydrides	6.05610950206653e-06
GO:0051320	S phase	7.70946964792907e-06
GO:0000084	S phase of mitotic cell cycle	7.70946964792907e-06
GO:0003887	DNA-directed DNA polymerase activity	1.09039358986273e-05
GO:0043601	nuclear replisome	1.72548783175568e-05
GO:0030894	replisome	1.72548783175568e-05
GO:0000228	nuclear chromosome	2.31261049021504e-05
GO:0043596	nuclear replication fork	2.31261049021504e-05
GO:0017111	nucleoside-triphosphatase activity	2.92124400973089e-05
GO:0006275	regulation of DNA replication	3.0516357846238e-05
GO:0005524	ATP binding	3.38675536102417e-05
GO:0032559	adenyl ribonucleotide binding	3.82808823314224e-05
GO:0007067	mitosis	5.80047972604077e-05
GO:0000087	M phase of mitotic cell cycle	5.89438766237021e-05
GO:0030554	adenyl nucleotide binding	6.36289417617455e-05
GO:0019219	regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	0.000155941073147859
GO:0006302	double-strand break repair	0.00017663550546281
GO:0007346	regulation of progression through mitotic cell cycle	0.00017663550546281
GO:0003896	DNA primase activity	0.000179382546341777
GO:0006350	transcription	0.00018759465755886
GO:0004386	helicase activity	0.000188673765015375
GO:0051052	regulation of DNA metabolic process	0.000190095688629298
GO:0010212	response to ionizing radiation	0.000190095688629298
GO:0019222	regulation of metabolic process	0.000199818676757546
GO:0044454	nuclear chromosome part	0.000249708036459689
GO:0016070	RNA metabolic process	0.000304170447340138
GO:0009219	pyrimidine deoxyribonucleotide metabolic process	0.000304170447340138
GO:0006269	DNA replication, synthesis of RNA primer	0.000304170447340138
GO:0006287	base-excision repair, gap-filling	0.000304170447340138
GO:0009221	pyrimidine deoxyribonucleotide biosynthetic process	0.000304170447340138
GO:0051327	M phase of meiotic cell cycle	0.000317638958272158
GO:0007126	meiosis	0.000317638958272158
GO:0032553	ribonucleotide binding	0.000322225484646875
GO:0032555	purine ribonucleotide binding	0.000322225484646875
GO:0051321	meiotic cell cycle	0.000322225484646875
GO:0016787	hydrolase activity	0.00036832978815441
GO:0051276	chromosome organization and biogenesis	0.000434618134789887
GO:0033261	regulation of progression through S phase	0.000434618134789887
GO:0009263	deoxyribonucleotide biosynthetic process	0.000434618134789887
GO:0007090	regulation of S phase of mitotic cell cycle	0.000434618134789887
GO:0017076	purine nucleotide binding	0.000447185330812165
GO:0044446	intracellular organelle part	0.000452490315714532
GO:0044422	organelle part	0.000476756506158463
GO:0031323	regulation of cellular metabolic process	0.000509064906395719
GO:0003899	DNA-directed RNA polymerase activity	0.000611674994291507
GO:0043232	intracellular non-membrane-bound organelle	0.00062545611014525
GO:0043228	non-membrane-bound organelle	0.00062545611014525
GO:0006338	chromatin remodeling	0.000764183637789637
GO:0051325	interphase	0.00101846235749989
GO:0051329	interphase of mitotic cell cycle	0.00101846235749989
GO:0000724	double-strand break repair via homologous recombination	0.00103935725970721
GO:0000725	recombinational repair	0.00103935725970721
GO:0008156	negative regulation of DNA replication	0.00103935725970721
GO:0001833	inner cell mass cell proliferation	0.00103935725970721
GO:0008283	cell proliferation	0.00124176142498293
GO:0016772	transferase activity, transferring phosphorus-containing groups	0.00124176142498293
GO:0044428	nuclear part	0.00125774878889427
GO:0006268	DNA unwinding during replication	0.00125774878889427
GO:0032508	DNA duplex unwinding	0.00125774878889427
GO:0032392	DNA geometric change	0.00125774878889427
GO:0032774	RNA biosynthetic process	0.00130999379615391
GO:0009262	deoxyribonucleotide metabolic process	0.00154009768440277
GO:0010165	response to X-ray	0.0018616474005412
GO:0001832	blastocyst growth	0.00255981425810372
GO:0006342	chromatin silencing	0.00255981425810372
GO:0031507	heterochromatin formation	0.00255981425810372
GO:0000775	chromosome, pericentric region	0.00280641356419977
GO:0051053	negative regulation of DNA metabolic process	0.00292845902660106
GO:0045814	negative regulation of gene expression, epigenetic	0.00334349102180072
GO:0010467	gene expression	0.00412730926283443
GO:0006284	base-excision repair	0.00424107610063794
GO:0006221	pyrimidine nucleotide biosynthetic process	0.0047221593430035
GO:0006220	pyrimidine nucleotide metabolic process	0.00516254453655152
GO:0003678	DNA helicase activity	0.00516254453655152
GO:0006730	one-carbon compound metabolic process	0.00516254453655152
GO:0031570	DNA integrity checkpoint	0.00555857942310869
GO:0016585	chromatin remodeling complex	0.00555857942310869
GO:0003697	single-stranded DNA binding	0.00555857942310869
GO:0009117	nucleotide metabolic process	0.00614601939436519
GO:0055086	nucleobase, nucleoside and nucleotide metabolic process	0.00785722532512364
GO:0016740	transferase activity	0.00787910142428621
GO:0009314	response to radiation	0.00839170878106891
GO:0000075	cell cycle checkpoint	0.0087002153863223
GO:0016458	gene silencing	0.0087002153863223
GO:0003682	chromatin binding	0.0087002153863223
GO:0007127	meiosis I	0.0087002153863223
GO:0006996	organelle organization and biogenesis	0.0087002153863223
GO:0042772	DNA damage response, signal transduction resulting in transcription	0.0087002153863223
GO:0031508	centric heterochromatin formation	0.0087002153863223
GO:0009177	pyrimidine deoxyribonucleoside monophosphate biosynthetic process	0.0087002153863223
GO:0009157	deoxyribonucleoside monophosphate biosynthetic process	0.0087002153863223
GO:0051171	regulation of nitrogen compound metabolic process	0.0087002153863223
GO:0051383	kinetochore organization and biogenesis	0.0087002153863223
GO:0043515	kinetochore binding	0.0087002153863223
GO:0009162	deoxyribonucleoside monophosphate metabolic process	0.0087002153863223
GO:0009176	pyrimidine deoxyribonucleoside monophosphate metabolic process	0.0087002153863223
GO:0006978	DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator	0.0087002153863223
GO:0004170	dUTP diphosphatase activity	0.0087002153863223
GO:0048478	replication fork protection	0.0087002153863223
GO:0006231	dTMP biosynthetic process	0.0087002153863223
GO:0042083	5,10-methylenetetrahydrofolate-dependent methyltransferase activity	0.0087002153863223
GO:0045004	DNA replication proofreading	0.0087002153863223
GO:0019740	nitrogen utilization	0.0087002153863223
GO:0046073	dTMP metabolic process	0.0087002153863223
GO:0031055	chromatin remodeling at centromere	0.0087002153863223
GO:0006545	glycine biosynthetic process	0.0087002153863223
GO:0004799	thymidylate synthase activity	0.0087002153863223
GO:0006808	regulation of nitrogen utilization	0.0087002153863223
GO:0004146	dihydrofolate reductase activity	0.0087002153863223
GO:0043626	PCNA complex	0.0087002153863223
GO:0045875	negative regulation of sister chromatid cohesion	0.0087002153863223
GO:0030337	DNA polymerase processivity factor activity	0.0087002153863223
GO:0007063	regulation of sister chromatid cohesion	0.0087002153863223
GO:0006355	regulation of transcription, DNA-dependent	0.00880140301853096
GO:0045449	regulation of transcription	0.00932692971064166
GO:0050794	regulation of cellular process	0.00947024922444374
GO:0006351	transcription, DNA-dependent	0.00956051246705678
GO:0005635	nuclear envelope	0.00993403381199426
GO:0001824	blastocyst development	0.00994799621884025
GO:0000792	heterochromatin	0.0131324804534796
GO:0050789	regulation of biological process	0.0131324804534796
GO:0009165	nucleotide biosynthetic process	0.0135724520300108
GO:0016569	covalent chromatin modification	0.0136850101753674
GO:0045934	negative regulation of nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	0.0150981133449953
GO:0009189	deoxyribonucleoside diphosphate biosynthetic process	0.0150981133449953
GO:0004798	thymidylate kinase activity	0.0150981133449953
GO:0009197	pyrimidine deoxyribonucleoside diphosphate biosynthetic process	0.0150981133449953
GO:0047429	nucleoside-triphosphate diphosphatase activity	0.0150981133449953
GO:0009196	pyrimidine deoxyribonucleoside diphosphate metabolic process	0.0150981133449953
GO:0006233	dTDP biosynthetic process	0.0150981133449953
GO:0009130	pyrimidine nucleoside monophosphate biosynthetic process	0.0150981133449953
GO:0009129	pyrimidine nucleoside monophosphate metabolic process	0.0150981133449953
GO:0009138	pyrimidine nucleoside diphosphate metabolic process	0.0150981133449953
GO:0010225	response to UV-C	0.0150981133449953
GO:0009139	pyrimidine nucleoside diphosphate biosynthetic process	0.0150981133449953
GO:0046072	dTDP metabolic process	0.0150981133449953
GO:0043414	biopolymer methylation	0.0162039160043243
GO:0040029	regulation of gene expression, epigenetic	0.0168730682349682
GO:0010468	regulation of gene expression	0.0172913426464061
GO:0032259	methylation	0.018140221160066
GO:0004527	exonuclease activity	0.018140221160066
GO:0051028	mRNA transport	0.0196343655688497
GO:0048589	developmental growth	0.0198511959057177
GO:0043566	structure-specific DNA binding	0.0198511959057177
GO:0009202	deoxyribonucleoside triphosphate biosynthetic process	0.0198511959057177
GO:0006235	dTTP biosynthetic process	0.0198511959057177
GO:0007141	male meiosis I	0.0198511959057177
GO:0000076	DNA replication checkpoint	0.0198511959057177
GO:0046075	dTTP metabolic process	0.0198511959057177
GO:0009211	pyrimidine deoxyribonucleoside triphosphate metabolic process	0.0198511959057177
GO:0010216	maintenance of DNA methylation	0.0198511959057177
GO:0009212	pyrimidine deoxyribonucleoside triphosphate biosynthetic process	0.0198511959057177
GO:0046125	pyrimidine deoxyribonucleoside metabolic process	0.0198511959057177
GO:0031573	intra-S DNA damage checkpoint	0.0198511959057177
GO:0000212	meiotic spindle organization and biogenesis	0.0198511959057177
GO:0032297	negative regulation of DNA replication initiation	0.0198511959057177
GO:0030174	regulation of DNA replication initiation	0.0198511959057177
GO:0045143	homologous chromosome segregation	0.0198511959057177
GO:0007089	traversing start control point of mitotic cell cycle	0.0198511959057177
GO:0009148	pyrimidine nucleoside triphosphate biosynthetic process	0.0198511959057177
GO:0051236	establishment of RNA localization	0.0198511959057177
GO:0050657	nucleic acid transport	0.0198511959057177
GO:0050658	RNA transport	0.0198511959057177
GO:0031324	negative regulation of cellular metabolic process	0.0198511959057177
GO:0006403	RNA localization	0.0202484670395594
GO:0005643	nuclear pore	0.0202484670395594
GO:0044464	cell part	0.0202484670395594
GO:0005623	cell	0.0202484670395594
GO:0016043	cellular component organization and biogenesis	0.0202484670395594
GO:0043234	protein complex	0.0202484670395594
GO:0065002	intracellular protein transport across a membrane	0.0222611536446463
GO:0015931	nucleobase, nucleoside, nucleotide and nucleic acid transport	0.0229557736592968
GO:0046930	pore complex	0.0235048772467655
GO:0016568	chromatin modification	0.0235048772467655
GO:0051567	histone H3-K9 methylation	0.0235048772467655
GO:0003689	DNA clamp loader activity	0.0235048772467655
GO:0033205	cytokinesis during cell cycle	0.0235048772467655
GO:0033170	DNA-protein loading ATPase activity	0.0235048772467655
GO:0009133	nucleoside diphosphate biosynthetic process	0.0235048772467655
GO:0009120	deoxyribonucleoside metabolic process	0.0235048772467655
GO:0009186	deoxyribonucleoside diphosphate metabolic process	0.0235048772467655
GO:0006346	methylation-dependent chromatin silencing	0.0235048772467655
GO:0005663	DNA replication factor C complex	0.0235048772467655
GO:0005721	centric heterochromatin	0.0235048772467655
GO:0045931	positive regulation of progression through mitotic cell cycle	0.0235048772467655
GO:0009628	response to abiotic stimulus	0.0235048772467655
GO:0044453	nuclear membrane part	0.0259789772887451
GO:0009892	negative regulation of metabolic process	0.0267945879902005
GO:0000074	regulation of progression through cell cycle	0.0271116267554325
GO:0031965	nuclear membrane	0.0272822106528812
GO:0000226	microtubule cytoskeleton organization and biogenesis	0.0279963129673401
GO:0001556	oocyte maturation	0.0283112397968595
GO:0009200	deoxyribonucleoside triphosphate metabolic process	0.0283112397968595
GO:0007062	sister chromatid cohesion	0.0283112397968595
GO:0000785	chromatin	0.032805469237265
GO:0065007	biological regulation	0.0328542136216438
GO:0000080	G1 phase of mitotic cell cycle	0.0331104184081896
GO:0009070	serine family amino acid biosynthetic process	0.0331104184081896
GO:0006213	pyrimidine nucleoside metabolic process	0.0331104184081896
GO:0051318	G1 phase	0.0331104184081896
GO:0000307	cyclin-dependent protein kinase holoenzyme complex	0.0381178251218692
GO:0007131	meiotic recombination	0.0381178251218692
GO:0045132	meiotic chromosome segregation	0.0381178251218692
GO:0032991	macromolecular complex	0.0383161317982588
GO:0006886	intracellular protein transport	0.0416380833161427
GO:0006544	glycine metabolic process	0.0420047285588263
GO:0048599	oocyte development	0.0420047285588263
GO:0010332	response to gamma radiation	0.0420047285588263
GO:0009994	oocyte differentiation	0.0420047285588263
GO:0005652	nuclear lamina	0.0420047285588263
GO:0005677	chromatin silencing complex	0.0420047285588263
GO:0004730	pseudouridylate synthase activity	0.0420047285588263
GO:0042771	DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis	0.0466557972357244
GO:0007140	male meiosis	0.0466557972357244
GO:0000922	spindle pole	0.0466557972357244

Relative expression of the co-expression cluster over median <br>Analyst:

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Enriched sample ontology terms on this co-expression cluster<b>Summary:</b>To summarize promoter activities (expression profile of a TSS region) across ~1000 samples, we performed enrichment analysis based on FANTOM5 Sample Ontology (FF ontology). The question here is “in which type of samples the promoter is more active”. To answer this question, we compared expressions (TPMs) in the samples associated with a sample ontology term and the rest of the samples by using the Mann-Whitney rank sum test. To summarize ontologies enriched in this co-expression cluster, we ran the same analysis on an averaged expression profile of all promoters that make up. <b>Analyst:</b> Hideya Kawaji <br><br>links to source dataset<br><br><br><br><br>

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TFBS overrepresentation<b>Summary:</b>The values shown are the p-values for overrepresentation of the motif in this coexpression cluster. So a small p-value means a strong overrepresentation. <b>Analyst:</b> Michiel de Hoon <br><br>link to source data <br> Novel motifs <br>data <br><br> Jaspar motifs <br>data

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Novel motifs

JASPAR motifs

Motifs	-log10(p-value)
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