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ENCSR904DTN: DNase-seq of mouse liver in constant darkness

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CREMA is a free online tool that recognizes most important transcription factors that change the chromatin state across different samples.

Results for Arnt2

Z-value: 0.30

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Transcription factors associated with Arnt2

Gene Symbol	Gene ID	Gene Info
Arnt2 Ensembl NCBI MGI UniProt	ENSMUSG00000015709.8	Arnt2

Correlations of motif activity and signal intensity at CREs associated with the motif's TFs:

This plot shows correlation between observed signal intensity of a CRE associated with the transcription factor across all samples and activity of the motif.

For each TF, only the top 5 correlated CREs are shown.

Gene	Promoter	Distance	Association probability	Pearson corr. coef.	P-value	Plot
Arnt2	chr7_84355719_84355915	12094	0.159467	-0.89	1.8e-02	Click!
Arnt2	chr7_84409303_84409461	501	0.775351	0.76	7.9e-02	Click!
Arnt2	chr7_84272524_84272705	3257	0.219422	0.54	2.7e-01	Click!
Arnt2	chr7_84417366_84417553	7283	0.169754	-0.51	3.1e-01	Click!
Arnt2	chr7_84417589_84417755	7496	0.168838	-0.45	3.7e-01	Click!

Activity of the Arnt2 motif across conditions

Conditions sorted by the z-value of the Arnt2 motif activity

Move your cursor over a bar to see sample name and corresponding Z-value.

Top target CREs of the motif:

Cis Regulatory Element (CRE)	Target Score	Top associated gene	Gene Info	Distance of CRE to TSS	CRE/Gene association probability
chr12_28898892_28899474	0.17	Gm31508	predicted gene, 31508	11046	0.17
chr3_83040161_83040458	0.11	Fgb	fibrinogen beta chain	9554	0.14
chr12_3858258_3858439	0.11	Dnmt3a	DNA methyltransferase 3A	2673	0.24
chr11_70608766_70608939	0.11	Mink1	misshapen-like kinase 1 (zebrafish)	886	0.3
chr5_118560059_118560217	0.10	Med13l	mediator complex subunit 13-like	541	0.72
chr9_107908957_107909108	0.10	Mst1r	macrophage stimulating 1 receptor (c-met-related tyrosine kinase)	2125	0.13
chr9_78022288_78022639	0.09	Gm47829	predicted gene, 47829	5482	0.12
chr7_107600772_107600937	0.09	Ppfibp2	PTPRF interacting protein, binding protein 2 (liprin beta 2)	5569	0.16
chr1_71938041_71938229	0.08	Gm28818	predicted gene 28818	21010	0.17
chr7_128398804_128398955	0.07	Rgs10	regulator of G-protein signalling 10	5194	0.13
chr9_70243258_70243430	0.07	Myo1e	myosin IE	35976	0.17
chr9_48480379_48480530	0.07	Rexo2	RNA exonuclease 2	125	0.95
chr1_106759665_106759986	0.07	Kdsr	3-ketodihydrosphingosine reductase	98	0.97
chr16_32065993_32066164	0.07	Gm26419	predicted gene, 26419	168	0.91
chr14_25660817_25660989	0.07	Zmiz1	zinc finger, MIZ-type containing 1	4073	0.19
chr12_111816647_111816859	0.06	Zfyve21	zinc finger, FYVE domain containing 21	497	0.67
chr8_106621324_106621497	0.06	Cdh1	cadherin 1	17267	0.16
chr8_123234508_123234799	0.06	4933417D19Rik	RIKEN cDNA 4933417D19 gene	438	0.57
chr17_25472162_25472329	0.06	Tekt4	tektin 4	648	0.56
chr8_124751425_124751592	0.06	Fam89a	family with sequence similarity 89, member A	324	0.83
chr13_58359003_58359169	0.06	Kif27	kinesin family member 27	36	0.96
chr15_36960858_36961018	0.06	Gm34590	predicted gene, 34590	22074	0.14
chr4_142077888_142078052	0.06	Tmem51os1	Tmem51 opposite strand 1	6002	0.15
chr2_33130281_33130432	0.05	Garnl3	GTPase activating RANGAP domain-like 3	252	0.91
chr7_31115327_31115506	0.05	Hpn	hepsin	126	0.92
chr19_8920279_8920446	0.05	B3gat3	beta-1,3-glucuronyltransferase 3 (glucuronosyltransferase I)	12	0.91
chr3_21988216_21988409	0.05	Gm43674	predicted gene 43674	10156	0.21
chr11_44405632_44405787	0.05	Il12b	interleukin 12b	5646	0.2
chr5_140648568_140648783	0.05	Ttyh3	tweety family member 3	322	0.85
chr9_107655632_107656026	0.05	Slc38a3	solute carrier family 38, member 3	191	0.86
chr17_84877556_84877740	0.05	Gm49982	predicted gene, 49982	24921	0.14
chr11_101083529_101083687	0.05	Coasy	Coenzyme A synthase	287	0.78
chr11_50292381_50292544	0.05	Maml1	mastermind like transcriptional coactivator 1	151	0.93
chr10_128459073_128459224	0.05	Smarcc2	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily c, member 2	100	0.81
chr5_88929617_88929827	0.05	Slc4a4	solute carrier family 4 (anion exchanger), member 4	4810	0.28
chr13_43252482_43252652	0.05	Gfod1	glucose-fructose oxidoreductase domain containing 1	50838	0.13
chr10_79866111_79866298	0.05	Plppr3	phospholipid phosphatase related 3	1077	0.19
chr12_86810853_86811037	0.04	Gm10095	predicted gene 10095	35522	0.14
chr5_88961784_88961935	0.04	Slc4a4	solute carrier family 4 (anion exchanger), member 4	27287	0.22
chr6_120777539_120777793	0.04	Slc25a18	solute carrier family 25 (mitochondrial carrier), member 18	4088	0.17
chr11_59787617_59787784	0.04	Pld6	phospholipase D family, member 6	55	0.95
chr1_191575029_191575351	0.04	Dtl	denticleless E3 ubiquitin protein ligase	321	0.58
chr8_72496145_72496313	0.04	Gm17435	predicted gene, 17435	3285	0.11
chr7_130865692_130865852	0.04	Plekha1	pleckstrin homology domain containing, family A (phosphoinositide binding specific) member 1	16	0.91
chr6_88831379_88831579	0.04	Abtb1	ankyrin repeat and BTB (POZ) domain containing 1	7236	0.11
chr3_121263297_121263469	0.04	Tlcd4	TLC domain containing 4	43	0.97
chr13_56588544_56588882	0.04	2010203P06Rik	RIKEN cDNA 2010203P06 gene	6824	0.18
chr6_39205376_39205554	0.04	Kdm7a	lysine (K)-specific demethylase 7A	1324	0.32
chr16_85172553_85172704	0.04	App	amyloid beta (A4) precursor protein	1076	0.5
chr19_6855220_6855477	0.04	Ccdc88b	coiled-coil domain containing 88B	110	0.93
chr5_66080941_66081107	0.04	Rbm47	RNA binding motif protein 47	24	0.96
chr14_63370757_63370955	0.04	Blk	B lymphoid kinase	5562	0.18
chr17_56673508_56673661	0.04	Ranbp3	RAN binding protein 3	200	0.9
chr9_120539742_120539893	0.04	Entpd3	ectonucleoside triphosphate diphosphohydrolase 3	1	0.96
chr7_35146051_35146625	0.04	Gm35665	predicted gene, 35665	4889	0.12
chr2_124764238_124764402	0.04	Gm13994	predicted gene 13994	55665	0.16
chr7_127703919_127704239	0.04	Bcl7c	B cell CLL/lymphoma 7C	3225	0.1
chr7_30072560_30072736	0.04	Zfp82	zinc finger protein 82	153	0.89
chr10_80702547_80702707	0.04	Izumo4	IZUMO family member 4	97	0.87
chr4_133680298_133680626	0.04	Pigv	phosphatidylinositol glycan anchor biosynthesis, class V	7815	0.13
chr7_49527548_49528235	0.04	Nav2	neuron navigator 2	20301	0.23
chr8_70839238_70839453	0.04	Arrdc2	arrestin domain containing 2	173	0.87
chr15_76207439_76207714	0.04	Plec	plectin	677	0.46
chr9_109092894_109093071	0.04	Plxnb1	plexin B1	2407	0.14
chr5_140607202_140607368	0.04	Lfng	LFNG O-fucosylpeptide 3-beta-N-acetylglucosaminyltransferase	35	0.93
chr10_81192883_81193034	0.04	Dapk3	death-associated protein kinase 3	1402	0.16
chr4_11147830_11148134	0.04	Gm11830	predicted gene 11830	3272	0.15
chr11_84682675_84682945	0.03	1700109G15Rik	RIKEN cDNA 1700109G15 gene	37622	0.16
chr3_138742123_138742276	0.03	Tspan5	tetraspanin 5	4	0.98
chr16_17132359_17132527	0.03	Sdf2l1	stromal cell-derived factor 2-like 1	60	0.92
chr17_46328441_46328616	0.03	Abcc10	ATP-binding cassette, sub-family C (CFTR/MRP), member 10	176	0.92
chr8_120438150_120438320	0.03	Gm22715	predicted gene, 22715	5314	0.21
chr11_78826748_78827038	0.03	Lyrm9	LYR motif containing 9	264	0.89
chr4_141723409_141723567	0.03	Ddi2	DNA-damage inducible protein 2	69	0.96
chr5_53998780_53998931	0.03	Stim2	stromal interaction molecule 2	290	0.93
chr6_82652519_82652678	0.03	Pole4	polymerase (DNA-directed), epsilon 4 (p12 subunit)	78	0.97
chr16_95814486_95814819	0.03	2810404F17Rik	RIKEN cDNA 2810404F17 gene	6335	0.19
chr1_171247148_171247313	0.03	Ndufs2	NADH:ubiquinone oxidoreductase core subunit S2	108	0.9
chr1_191313013_191313425	0.03	Nenf	neuron derived neurotrophic factor	4975	0.16
chr3_122482421_122482595	0.03	Bcar3	breast cancer anti-estrogen resistance 3	1215	0.39
chr2_27212341_27212510	0.03	Sardh	sarcosine dehydrogenase	2488	0.21
chr9_60837448_60837607	0.03	Gm9869	predicted gene 9869	672	0.71
chr3_60057962_60058174	0.03	Sucnr1	succinate receptor 1	23801	0.14
chr4_117229573_117229739	0.03	1700012C08Rik	RIKEN cDNA 1700012C08 gene	15874	0.07
chr2_154552446_154552618	0.03	Actl10	actin-like 10	756	0.49
chr7_118491860_118492044	0.03	Itpripl2	inositol 1,4,5-triphosphate receptor interacting protein-like 2	23	0.97
chr8_94377700_94377868	0.03	Gm15889	predicted gene 15889	88	0.94
chr4_155992309_155992490	0.03	B3galt6	UDP-Gal:betaGal beta 1,3-galactosyltransferase, polypeptide 6	250	0.63
chr8_84712564_84712722	0.03	Nfix	nuclear factor I/X	1425	0.25
chr8_107478885_107479169	0.03	Wwp2	WW domain containing E3 ubiquitin protein ligase 2	4305	0.19
chr17_26508062_26508231	0.03	Dusp1	dual specificity phosphatase 1	326	0.81
chrX_98937926_98938238	0.03	Yipf6	Yip1 domain family, member 6	125	0.97
chr10_127516737_127516940	0.03	Ndufa4l2	Ndufa4, mitochondrial complex associated like 2	1871	0.17
chr8_11730699_11730857	0.03	Arhgef7	Rho guanine nucleotide exchange factor (GEF7)	2601	0.15
chr4_139964484_139964679	0.03	Mir2139	microRNA 2139	3039	0.2
chr9_44537727_44537883	0.03	Cxcr5	chemokine (C-X-C motif) receptor 5	11223	0.08
chr1_86595445_86595606	0.03	Cops7b	COP9 signalosome subunit 7B	1215	0.35
chr17_55712577_55712746	0.03	Pot1b	protection of telomeres 1B	33	0.97
chr19_5567813_5567988	0.03	Ap5b1	adaptor-related protein complex 5, beta 1 subunit	125	0.9
chr14_11569795_11569971	0.03	Ptprg	protein tyrosine phosphatase, receptor type, G	16302	0.21
chr5_43233554_43233922	0.03	Cpeb2	cytoplasmic polyadenylation element binding protein 2	189	0.9
chr10_127349953_127350109	0.02	Inhbe	inhibin beta-E	4380	0.09
chr11_82567439_82567600	0.02	Gm24612	predicted gene, 24612	28660	0.17
chr11_75196330_75196483	0.02	Rtn4rl1	reticulon 4 receptor-like 1	2623	0.15
chr5_142819812_142819971	0.02	Tnrc18	trinucleotide repeat containing 18	2229	0.28
chr8_47673422_47673581	0.02	Ing2	inhibitor of growth family, member 2	188	0.9
chr5_65536628_65536812	0.02	Smim14	small integral membrane protein 14	409	0.45
chr1_36094936_36095089	0.02	Hs6st1	heparan sulfate 6-O-sulfotransferase 1	6678	0.14
chr1_88213972_88214137	0.02	Ugt1a1	UDP glucuronosyltransferase 1 family, polypeptide A1	2095	0.13
chr11_69684271_69684422	0.02	Tnfsf13os	tumor necrosis factor (ligand) superfamily, member 13, opposite strand	17	0.89
chr9_90260181_90260562	0.02	Tbc1d2b	TBC1 domain family, member 2B	4444	0.2
chr4_141139422_141139603	0.02	Szrd1	SUZ RNA binding domain containing 1	215	0.89
chr8_126986591_126986750	0.02	Gm38574	predicted gene, 38574	4438	0.17
chr7_28919694_28920029	0.02	Actn4	actinin alpha 4	640	0.55
chrX_167719562_167719742	0.02	Gm15238	predicted gene 15238	56609	0.15
chr12_80103737_80103943	0.02	Zfp36l1	zinc finger protein 36, C3H type-like 1	9154	0.12
chr4_118138797_118138948	0.02	St3gal3	ST3 beta-galactoside alpha-2,3-sialyltransferase 3	3958	0.19
chr17_5189712_5190024	0.02	Gm15599	predicted gene 15599	77758	0.1
chr11_57697009_57697179	0.02	4933426K07Rik	RIKEN cDNA 4933426K07 gene	39268	0.11
chr11_43747505_43747851	0.02	Ttc1	tetratricopeptide repeat domain 1	304	0.91
chr8_69654338_69654500	0.02	Zfp964	zinc finger protein 964	60	0.97
chr11_74896549_74896739	0.02	Sgsm2	small G protein signaling modulator 2	416	0.66
chr11_69125215_69125587	0.02	Aloxe3	arachidonate lipoxygenase 3	495	0.58
chr4_130662896_130663297	0.02	Pum1	pumilio RNA-binding family member 1	225	0.94
chr7_16098491_16098656	0.02	Napa	N-ethylmaleimide sensitive fusion protein attachment protein alpha	35	0.96
chr5_32139274_32139441	0.02	Fosl2	fos-like antigen 2	3184	0.2
chr9_18473377_18473557	0.02	Zfp558	zinc finger protein 558	45	0.96
chr1_82291509_82291798	0.02	Irs1	insulin receptor substrate 1	237	0.93
chr7_111082364_111082563	0.02	Eif4g2	eukaryotic translation initiation factor 4, gamma 2	268	0.88
chr2_32353075_32353226	0.02	Dnm1	dynamin 1	84	0.9
chr19_6401728_6401968	0.02	Rasgrp2	RAS, guanyl releasing protein 2	129	0.91
chr2_27625052_27625210	0.02	Rxra	retinoid X receptor alpha	51309	0.12
chr15_11407473_11407634	0.02	Tars	threonyl-tRNA synthetase	7888	0.27
chr9_44510210_44510366	0.02	Bcl9l	B cell CLL/lymphoma 9-like	11016	0.07
chr17_15375757_15376124	0.02	Dll1	delta like canonical Notch ligand 1	36	0.97
chr13_41825478_41825636	0.02	Adtrp	androgen dependent TFPI regulating protein	2802	0.21
chr5_119332414_119332646	0.02	n-R5s175	nuclear encoded rRNA 5S 175	35285	0.21
chr5_105743024_105743409	0.02	Lrrc8d	leucine rich repeat containing 8D	10986	0.21
chr8_70891500_70891664	0.02	Slc5a5	solute carrier family 5 (sodium iodide symporter), member 5	1175	0.23
chr5_119669578_119669743	0.02	Tbx3	T-box 3	1009	0.41
chr6_97311981_97312511	0.02	Frmd4b	FERM domain containing 4B	134	0.97
chr1_132800530_132800731	0.02	Gm22609	predicted gene, 22609	13718	0.19
chr9_122805662_122805885	0.02	Tcaim	T cell activation inhibitor, mitochondrial	170	0.92
chr15_25623084_25623317	0.02	Myo10	myosin X	651	0.7
chr8_126474497_126474692	0.02	Tarbp1	TAR RNA binding protein 1	471	0.78
chr9_36726799_36727144	0.02	Chek1	checkpoint kinase 1	94	0.95
chr17_47762752_47763230	0.02	Tfeb	transcription factor EB	179	0.92
chr1_55087767_55088017	0.01	Hspd1	heat shock protein 1 (chaperonin)	132	0.64
chr10_14174290_14174471	0.01	Gm28289	predicted gene 28289	19934	0.15
chr3_145758894_145759070	0.01	Ddah1	dimethylarginine dimethylaminohydrolase 1	307	0.91
chr13_44730938_44731098	0.01	Jarid2	jumonji, AT rich interactive domain 2	159	0.97
chr17_46872155_46872347	0.01	Bicral	BRD4 interacting chromatin remodeling complex associated protein like	13769	0.14
chr3_96246696_96246882	0.01	H3c14	H3 clustered histone 14	104	0.69
chr1_58029738_58029905	0.01	Aox1	aldehyde oxidase 1	110	0.96
chr8_25754343_25754535	0.01	Ddhd2	DDHD domain containing 2	26	0.5
chr2_145787645_145787796	0.01	Rin2	Ras and Rab interactor 2	1558	0.46
chr13_112463928_112464102	0.01	Il6st	interleukin 6 signal transducer	55	0.97
chr5_136965885_136966036	0.01	Cldn15	claudin 15	656	0.49
chr9_48836173_48836358	0.01	Zbtb16	zinc finger and BTB domain containing 16	43	0.98
chr12_73584355_73584506	0.01	Prkch	protein kinase C, eta	366	0.87
chr18_35810644_35810817	0.01	Ube2d2a	ubiquitin-conjugating enzyme E2D 2A	9423	0.1
chr4_149998934_149999412	0.01	H6pd	hexose-6-phosphate dehydrogenase (glucose 1-dehydrogenase)	2092	0.26
chr15_59314887_59315038	0.01	Sqle	squalene epoxidase	115	0.96
chr9_44734580_44734731	0.01	Phldb1	pleckstrin homology like domain, family B, member 1	543	0.54
chr1_75141569_75141774	0.01	Cnppd1	cyclin Pas1/PHO80 domain containing 1	20	0.93
chr4_132422119_132422282	0.01	Phactr4	phosphatase and actin regulator 4	241	0.85
chr7_19676784_19676961	0.01	Apoc2	apolipoprotein C-II	8	0.94
chr2_31125293_31125578	0.01	Fnbp1	formin binding protein 1	9123	0.16
chr3_90258910_90259076	0.01	Crtc2	CREB regulated transcription coactivator 2	28	0.94
chr4_149955087_149955244	0.01	Spsb1	splA/ryanodine receptor domain and SOCS box containing 1	122	0.96
chr11_6291801_6292002	0.01	Ogdh	oxoglutarate (alpha-ketoglutarate) dehydrogenase (lipoamide)	84	0.95
chr1_171072220_171072512	0.01	Gm27552	predicted gene, 27552	79	0.94
chr5_110755870_110756045	0.01	Gm22583	predicted gene, 22583	1128	0.34
chr4_155216155_155216394	0.01	Ski	ski sarcoma viral oncogene homolog (avian)	6261	0.18
chr1_171079830_171080124	0.01	Gm27844	predicted gene, 27844	76	0.94
chr17_57233819_57233970	0.01	C3	complement component 3	5758	0.11
chr11_115297531_115297704	0.01	Fads6	fatty acid desaturase domain family, member 6	46	0.95
chr17_25015240_25015422	0.01	Cramp1l	cramped chromatin regulator homolog 1	101	0.9
chr6_71991498_71991895	0.01	Gm26628	predicted gene, 26628	27921	0.11
chr12_73908159_73908332	0.01	Hif1a	hypoxia inducible factor 1, alpha subunit	341	0.86
chr1_132346178_132346454	0.01	F730311O21Rik	RIKEN cDNA F730311O21 gene	4293	0.14
chr17_88064763_88064934	0.01	Fbxo11	F-box protein 11	39	0.98
chr1_37430023_37430178	0.01	Coa5	cytochrome C oxidase assembly factor 5	3	0.51
chr19_41483606_41484014	0.01	Lcor	ligand dependent nuclear receptor corepressor	781	0.68
chr2_26556400_26556716	0.01	Gm13358	predicted gene 13358	2067	0.18
chr4_45479517_45479668	0.01	Shb	src homology 2 domain-containing transforming protein B	3210	0.21
chr2_167760038_167760213	0.01	Gm14321	predicted gene 14321	17342	0.13
chr11_68853069_68853241	0.01	Ndel1	nudE neurodevelopment protein 1 like 1	20	0.97
chr2_29751437_29751588	0.01	Gm13420	predicted gene 13420	173	0.91
chr3_122483883_122484034	0.01	Bcar3	breast cancer anti-estrogen resistance 3	235	0.9
chr19_26845381_26845541	0.01	4931403E22Rik	RIKEN cDNA 4931403E22 gene	21554	0.18
chr8_72322510_72322872	0.01	Klf2	Kruppel-like factor 2 (lung)	3658	0.15
chr11_61855083_61855463	0.00	Ulk2	unc-51 like kinase 2	200	0.92
chr9_53610323_53610482	0.00	Acat1	acetyl-Coenzyme A acetyltransferase 1	20	0.97
chr8_70761136_70761327	0.00	Mpv17l2	MPV17 mitochondrial membrane protein-like 2	285	0.74
chr11_53904286_53904443	0.00	Gm12218	predicted gene 12218	1209	0.29
chr11_16838911_16839088	0.00	Egfros	epidermal growth factor receptor, opposite strand	8297	0.22
chr10_121365310_121365488	0.00	Gns	glucosamine (N-acetyl)-6-sulfatase	223	0.9
chr7_81523636_81523823	0.00	2900076A07Rik	RIKEN cDNA 2900076A07 gene	111	0.93
chr11_51756413_51756731	0.00	Sec24a	Sec24 related gene family, member A (S. cerevisiae)	46	0.97

Histogram of CRE-TSS distances for CREs targeted by :

Rank distribution of CRE target scores:

Distribution of target CREs across different genomic regions:

Network of associatons between targets according to the STRING database.

First level regulatory network of Arnt2

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Gene Ontology Analysis

Gene overrepresentation in biological process category:

Total log-likelihood	Term	Description
0.0	GO:2000611	positive regulation of thyroid hormone generation(GO:2000611)
0.0	GO:0006868	glutamine transport(GO:0006868) histidine transport(GO:0015817)
0.0	GO:0021882	regulation of transcription from RNA polymerase II promoter involved in forebrain neuron fate commitment(GO:0021882)
0.0	GO:0016554	cytidine to uridine editing(GO:0016554)
0.1	GO:0060926	cardiac pacemaker cell development(GO:0060926)
0.0	GO:0043152	induction of bacterial agglutination(GO:0043152)

Gene overrepresentation in molecular function category:

Log-likelihood per target	Total log-likelihood	Term	Description
0.0	0.0	GO:0015018	galactosylgalactosylxylosylprotein 3-beta-glucuronosyltransferase activity(GO:0015018)
0.0	0.0	GO:0015182	L-asparagine transmembrane transporter activity(GO:0015182) L-glutamine transmembrane transporter activity(GO:0015186)
0.0	0.0	GO:0030572	cardiolipin synthase activity(GO:0008808) phosphatidyltransferase activity(GO:0030572)