Project

ENCSR904DTN: DNase-seq of mouse liver in constant darkness

Navigation

Downloads

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

Results for Sox5_Sry

Z-value: 0.46

Motif logo

Transcription factors associated with Sox5_Sry

Gene Symbol	Gene ID	Gene Info
Sox5 Ensembl NCBI MGI UniProt	ENSMUSG00000041540.10	Sox5
Sry Ensembl NCBI MGI UniProt	ENSMUSG00000069036.3	Sry

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
Sox5	chr6_144155774_144155925	48208	0.183274	-0.91	1.2e-02	Click!
Sox5	chr6_144204039_144204246	85	0.985389	-0.81	5.1e-02	Click!
Sox5	chr6_144753669_144753921	28124	0.135933	-0.80	5.6e-02	Click!
Sox5	chr6_144210184_144210365	706	0.810293	-0.80	5.7e-02	Click!
Sox5	chr6_144209110_144209295	250	0.959818	-0.78	6.5e-02	Click!

Activity of the Sox5_Sry motif across conditions

Conditions sorted by the z-value of the Sox5_Sry 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
chr3_116510337_116510525	0.17	Rtca	RNA 3'-terminal phosphate cyclase	2223	0.16
chr11_16704048_16704199	0.16	Gm25698	predicted gene, 25698	28588	0.15
chr7_140772355_140773139	0.15	Cyp2e1	cytochrome P450, family 2, subfamily e, polypeptide 1	8266	0.09
chr3_69094579_69094744	0.14	Gm22009	predicted gene, 22009	9214	0.13
chr19_40156899_40157166	0.14	Cyp2c70	cytochrome P450, family 2, subfamily c, polypeptide 70	30254	0.13
chr15_59391938_59392317	0.14	Nsmce2	NSE2/MMS21 homolog, SMC5-SMC6 complex SUMO ligase	17840	0.18
chr1_92683263_92683419	0.14	Gm29483	predicted gene 29483	33861	0.09
chr1_74807738_74808135	0.14	Wnt10a	wingless-type MMTV integration site family, member 10A	14573	0.11
chr2_147988721_147988917	0.13	9030622O22Rik	RIKEN cDNA 9030622O22 gene	12634	0.21
chr9_74872523_74872674	0.13	Onecut1	one cut domain, family member 1	6114	0.16
chr15_102116938_102117135	0.13	Tns2	tensin 2	1897	0.2
chr16_24121120_24121271	0.12	Gm31583	predicted gene, 31583	31106	0.14
chr4_114958381_114958568	0.12	Cmpk1	cytidine monophosphate (UMP-CMP) kinase 1	28598	0.11
chr12_104083020_104083260	0.12	Serpina4-ps1	serine (or cysteine) peptidase inhibitor, clade A, member 4, pseudogene 1	2491	0.16
chr12_37050724_37050882	0.11	Gm48617	predicted gene, 48617	1586	0.37
chr7_134497342_134497526	0.11	D7Ertd443e	DNA segment, Chr 7, ERATO Doi 443, expressed	1550	0.55
chr18_16662543_16662742	0.10	Cdh2	cadherin 2	7427	0.29
chr15_26639292_26639449	0.10	9430068D22Rik	RIKEN cDNA 9430068D22 gene	5919	0.2
chr11_16821774_16821942	0.10	Egfros	epidermal growth factor receptor, opposite strand	8844	0.22
chr16_49049395_49049546	0.10	Myh15	myosin, heavy chain 15	8016	0.22
chr1_88064051_88064407	0.10	AC087801.2	UDP glucuronosyltransferase 1 family, polypeptide A9 (Ugt1a9), pseudogene	3105	0.1
chr3_80042843_80043016	0.10	A330069K06Rik	RIKEN cDNA A330069K06 gene	11963	0.22
chr2_178471902_178472068	0.10	Cdh26	cadherin-like 26	11355	0.22
chr14_66023636_66023794	0.10	Gulo	gulonolactone (L-) oxidase	14508	0.15
chr3_25017765_25017942	0.09	Gm42774	predicted gene 42774	10148	0.29
chr13_90739139_90739300	0.09	Gm44338	predicted gene, 44338	20893	0.2
chr2_149993027_149993210	0.09	Gm14140	predicted gene 14140	118458	0.05
chr11_49837892_49838056	0.09	Mapk9	mitogen-activated protein kinase 9	8777	0.16
chr10_59537699_59537863	0.09	Gm10322	predicted gene 10322	78282	0.08
chr10_20749070_20749231	0.09	Gm48651	predicted gene, 48651	6967	0.23
chr3_10136245_10136401	0.09	Gm37308	predicted gene, 37308	46368	0.08
chr2_84180208_84180377	0.09	Gm25972	predicted gene, 25972	30237	0.16
chr1_88048809_88049389	0.08	Ugt1a10	UDP glycosyltransferase 1 family, polypeptide A10	6289	0.08
chr13_44026422_44026628	0.08	Gm33489	predicted gene, 33489	8003	0.22
chr2_11597723_11597874	0.08	Rbm17	RNA binding motif protein 17	5464	0.14
chr1_71807937_71808302	0.08	Gm37217	predicted gene, 37217	38491	0.15
chr18_43980831_43980982	0.08	Spink5	serine peptidase inhibitor, Kazal type 5	17671	0.17
chr9_32656566_32656728	0.08	Ets1	E26 avian leukemia oncogene 1, 5' domain	20399	0.15
chr9_100488481_100488638	0.08	Il20rb	interleukin 20 receptor beta	1771	0.29
chr2_22587699_22587875	0.08	Gm13341	predicted gene 13341	175	0.91
chr14_7840036_7840206	0.08	Flnb	filamin, beta	22164	0.15
chr17_5324481_5324860	0.08	Gm29050	predicted gene 29050	64093	0.11
chr6_77098640_77098806	0.08	Ctnna2	catenin (cadherin associated protein), alpha 2	45220	0.19
chr6_101160855_101161061	0.08	Gm19726	predicted gene, 19726	14479	0.15
chr2_83740744_83740901	0.08	Dnmt3l-ps1	DNA methyltransferase 3-like, pseudogene 1	4914	0.17
chr13_110398929_110399098	0.08	Plk2	polo like kinase 2	1216	0.56
chr5_125518895_125519046	0.08	Aacs	acetoacetyl-CoA synthetase	3727	0.19
chr4_70531154_70531323	0.08	Megf9	multiple EGF-like-domains 9	3690	0.37
chr13_63298050_63298241	0.08	Aopep	aminopeptidase O	648	0.44
chr3_121982496_121982688	0.08	Arhgap29	Rho GTPase activating protein 29	1042	0.54
chr4_80003665_80003823	0.08	Gm11408	predicted gene 11408	170	0.59
chr15_6248496_6248831	0.08	Dab2	disabled 2, mitogen-responsive phosphoprotein	51125	0.13
chr4_55750022_55750212	0.08	Gm12506	predicted gene 12506	144968	0.04
chr9_53288790_53288968	0.08	Exph5	exophilin 5	12791	0.18
chr7_140767825_140767976	0.07	Cyp2e1	cytochrome P450, family 2, subfamily e, polypeptide 1	3419	0.12
chr16_91411218_91411402	0.07	Il10rb	interleukin 10 receptor, beta	4866	0.12
chrX_116629798_116629984	0.07	H2ab2	H2A.B variant histone 2	51287	0.17
chr16_23326741_23326947	0.07	St6gal1	beta galactoside alpha 2,6 sialyltransferase 1	36374	0.13
chr17_31079236_31079399	0.07	Gm25447	predicted gene, 25447	19713	0.12
chr13_80886812_80887097	0.07	Arrdc3	arrestin domain containing 3	859	0.49
chr1_74027353_74027507	0.07	Tns1	tensin 1	9703	0.23
chr2_128719461_128719612	0.07	Mertk	MER proto-oncogene tyrosine kinase	20580	0.14
chr9_85369091_85369242	0.07	Gm48832	predicted gene, 48832	21101	0.14
chr10_37711570_37711751	0.07	Gm24710	predicted gene, 24710	220020	0.02
chr2_46365879_46366164	0.07	Gm13469	predicted gene 13469	40548	0.18
chr1_172525495_172525646	0.07	Cfap45	cilia and flagella associated protein 45	479	0.67
chr1_70811018_70811204	0.07	Vwc2l	von Willebrand factor C domain-containing protein 2-like	85188	0.1
chr5_74647970_74648138	0.07	Lnx1	ligand of numb-protein X 1	24533	0.16
chr10_19904541_19904692	0.07	Pex7	peroxisomal biogenesis factor 7	3031	0.24
chr5_92858921_92859073	0.07	Shroom3	shroom family member 3	2526	0.33
chr2_163586943_163587113	0.07	Ttpal	tocopherol (alpha) transfer protein-like	15286	0.13
chr5_17836112_17836269	0.07	Cd36	CD36 molecule	473	0.89
chr4_86047006_86047165	0.07	Gm25811	predicted gene, 25811	3591	0.3
chr4_59292456_59292607	0.07	Susd1	sushi domain containing 1	23435	0.17
chr18_60748821_60749236	0.07	Ndst1	N-deacetylase/N-sulfotransferase (heparan glucosaminyl) 1	378	0.77
chr3_39220363_39220530	0.07	Gm43008	predicted gene 43008	2600	0.39
chr8_11148911_11149083	0.07	Gm44717	predicted gene 44717	249	0.91
chr10_80917355_80917522	0.07	Lmnb2	lamin B2	413	0.7
chr6_91424605_91424772	0.07	Gm4575	predicted gene 4575	4195	0.12
chr18_78260055_78260206	0.07	Slc14a2	solute carrier family 14 (urea transporter), member 2	51036	0.15
chr11_107402263_107402420	0.07	Gm11713	predicted gene 11713	8049	0.14
chr11_107276986_107277168	0.07	Gm11719	predicted gene 11719	53631	0.09
chr12_54671337_54671527	0.07	Gm24971	predicted gene, 24971	4646	0.08
chr19_27672733_27673067	0.07	Gm24782	predicted gene, 24782	31107	0.23
chr1_60716026_60716187	0.07	Cd28	CD28 antigen	694	0.59
chr13_90799244_90799545	0.07	Gm47521	predicted gene, 47521	21311	0.19
chr1_174742793_174742954	0.07	Fmn2	formin 2	28547	0.24
chr14_31101945_31102096	0.07	Pbrm1	polybromo 1	17816	0.09
chr19_12613775_12613971	0.07	Gm4952	predicted gene 4952	13857	0.09
chr6_31148380_31148897	0.07	Gm37728	predicted gene, 37728	1219	0.36
chr10_126001088_126001318	0.06	Lrig3	leucine-rich repeats and immunoglobulin-like domains 3	10428	0.26
chr17_73786615_73786813	0.06	Ehd3	EH-domain containing 3	17420	0.2
chr17_27480362_27480514	0.06	Grm4	glutamate receptor, metabotropic 4	7122	0.11
chr10_87030552_87030730	0.06	Stab2	stabilin 2	22616	0.14
chr1_134079839_134079990	0.06	Btg2	BTG anti-proliferation factor 2	794	0.53
chr1_170972984_170973148	0.06	Gm38204	predicted gene, 38204	307	0.79
chr6_141348213_141348590	0.06	Gm10400	predicted gene 10400	7848	0.26
chr13_94037879_94038063	0.06	Cycs-ps3	cytochrome c, pseudogene 3	15872	0.17
chr15_25531182_25531388	0.06	Gm36642	predicted gene, 36642	61806	0.1
chr8_109993075_109993269	0.06	Tat	tyrosine aminotransferase	2666	0.18
chr19_36803505_36803664	0.06	Gm50112	predicted gene, 50112	15064	0.19
chr6_35253418_35253775	0.06	1810058I24Rik	RIKEN cDNA 1810058I24 gene	864	0.54
chr13_107798210_107798399	0.06	Gm22118	predicted gene, 22118	30976	0.19
chr10_84581307_84581543	0.06	Tcp11l2	t-complex 11 (mouse) like 2	4528	0.15
chr9_70011238_70011422	0.06	Gtf2a2	general transcription factor II A, 2	1220	0.39
chr6_113038436_113038611	0.06	Gm23244	predicted gene, 23244	2589	0.16
chr1_60833760_60833934	0.06	Gm11581	predicted gene 11581	24731	0.11
chr1_88044946_88045337	0.06	AC087801.1	UDP glycosyltransferase 1 family (Ytg1) pseudogene	7541	0.08
chrX_20561959_20562110	0.06	Rgn	regucalcin	12247	0.13
chr1_72255173_72255368	0.06	Gm25939	predicted gene, 25939	262	0.86
chr2_168102539_168102698	0.06	AL831766.1	breast carcinoma amplified sequence 4 (BCAS4) pseudogene	12259	0.13
chr3_99187907_99188075	0.06	Gm18982	predicted gene, 18982	6710	0.13
chr12_58297089_58297242	0.06	Clec14a	C-type lectin domain family 14, member a	27875	0.24
chr17_80677489_80677679	0.06	Map4k3	mitogen-activated protein kinase kinase kinase kinase 3	26434	0.19
chr1_57391527_57391708	0.06	Tyw5	tRNA-yW synthesizing protein 5	123	0.95
chr11_107373329_107373545	0.06	Gm11712	predicted gene 11712	13546	0.13
chr8_93233702_93233868	0.06	Ces1e	carboxylesterase 1E	4166	0.16
chr8_106882742_106882961	0.06	Chtf8	CTF8, chromosome transmission fidelity factor 8	10364	0.12
chr7_126760516_126760683	0.06	Mapk3	mitogen-activated protein kinase 3	2	0.92
chr5_3488489_3488661	0.06	Gm17590	predicted gene, 17590	7702	0.13
chrX_120279500_120279651	0.06	Pcdh11x	protocadherin 11 X-linked	10684	0.2
chr3_121346684_121346853	0.06	Gm5711	predicted gene 5711	33911	0.12
chr5_130200757_130200925	0.06	Rabgef1	RAB guanine nucleotide exchange factor (GEF) 1	6212	0.1
chr3_63992313_63992468	0.06	Gmps	guanine monophosphate synthetase	16284	0.13
chr1_64308159_64308318	0.06	Gm28981	predicted gene 28981	5195	0.28
chr5_43788120_43788279	0.06	Gm43181	predicted gene 43181	2082	0.19
chr14_65357765_65357928	0.06	Zfp395	zinc finger protein 395	543	0.68
chr1_31046483_31046963	0.06	Gm28644	predicted gene 28644	4804	0.19
chr4_53280466_53280664	0.06	AI427809	expressed sequence AI427809	10333	0.18
chr15_73506117_73506298	0.06	Dennd3	DENN/MADD domain containing 3	6353	0.18
chr16_46131552_46131725	0.06	Cd96	CD96 antigen	11387	0.19
chr8_69063559_69063737	0.06	Slc18a1	solute carrier family 18 (vesicular monoamine), member 1	11860	0.15
chr4_49535372_49535819	0.06	Aldob	aldolase B, fructose-bisphosphate	3271	0.17
chr14_86309035_86309286	0.06	Gm23926	predicted gene, 23926	2218	0.22
chr5_112843602_112843780	0.06	Myo18b	myosin XVIIIb	27895	0.17
chr10_121316471_121316644	0.06	Tbc1d30	TBC1 domain family, member 30	5368	0.16
chr12_51709142_51709293	0.06	Strn3	striatin, calmodulin binding protein 3	17320	0.16
chr4_49542856_49543140	0.06	Aldob	aldolase B, fructose-bisphosphate	3112	0.18
chr8_76907164_76907353	0.06	Nr3c2	nuclear receptor subfamily 3, group C, member 2	1014	0.57
chr4_137772777_137772941	0.06	Alpl	alkaline phosphatase, liver/bone/kidney	3039	0.27
chr4_81591457_81591882	0.06	Gm11411	predicted gene 11411	104772	0.07
chr5_147894276_147894456	0.05	Slc46a3	solute carrier family 46, member 3	449	0.8
chr19_10664062_10664213	0.05	Vwce	von Willebrand factor C and EGF domains	6148	0.1
chr5_90457077_90457513	0.05	Alb	albumin	3602	0.2
chr19_8097849_8098000	0.05	Slc22a28	solute carrier family 22, member 28	34058	0.16
chr3_89143426_89143577	0.05	Pklr	pyruvate kinase liver and red blood cell	6878	0.07
chr7_140719940_140720091	0.05	Olfr542-ps1	olfactory receptor 542, pseudogene 1	1267	0.28
chr16_95432244_95432403	0.05	Erg	ETS transcription factor	26922	0.22
chr15_10375239_10375408	0.05	Agxt2	alanine-glyoxylate aminotransferase 2	16744	0.19
chr11_16845424_16845700	0.05	Egfros	epidermal growth factor receptor, opposite strand	14860	0.2
chr16_95459306_95459486	0.05	Erg	ETS transcription factor	48	0.99
chr10_93282645_93282796	0.05	Elk3	ELK3, member of ETS oncogene family	28091	0.14
chr13_114392779_114392930	0.05	Ndufs4	NADH:ubiquinone oxidoreductase core subunit S4	4596	0.21
chr5_139384486_139384856	0.05	Gpr146	G protein-coupled receptor 146	4090	0.13
chr14_37027574_37027733	0.05	Gm47885	predicted gene, 47885	3119	0.2
chr8_69112104_69112255	0.05	Atp6v1b2	ATPase, H+ transporting, lysosomal V1 subunit B2	9051	0.16
chr15_75596455_75596620	0.05	Gpihbp1	GPI-anchored HDL-binding protein 1	91	0.95
chr17_45567292_45567749	0.05	Hsp90ab1	heat shock protein 90 alpha (cytosolic), class B member 1	2216	0.14
chr3_114294859_114295010	0.05	Col11a1	collagen, type XI, alpha 1	129656	0.06
chr17_31474403_31474582	0.05	Pde9a	phosphodiesterase 9A	3440	0.12
chr4_150576385_150576576	0.05	Rere	arginine glutamic acid dipeptide (RE) repeats	6823	0.21
chr6_5473962_5474316	0.05	Pdk4	pyruvate dehydrogenase kinase, isoenzyme 4	22122	0.24
chr5_107120720_107120871	0.05	Tgfbr3	transforming growth factor, beta receptor III	12128	0.16
chr8_126847749_126848310	0.05	A630001O12Rik	RIKEN cDNA A630001O12 gene	8796	0.2
chr13_35016383_35016558	0.05	Eci2	enoyl-Coenzyme A delta isomerase 2	10624	0.12
chr4_6539560_6539735	0.05	Gm11801	predicted gene 11801	86	0.98
chr6_149359539_149359690	0.05	Gm15784	predicted gene 15784	2072	0.23
chr7_73478544_73478710	0.05	Chd2	chromodomain helicase DNA binding protein 2	201	0.91
chr2_103870054_103870389	0.05	Gm13876	predicted gene 13876	18103	0.09
chr3_94512708_94512862	0.05	Snx27	sorting nexin family member 27	6306	0.09
chr5_100368600_100368758	0.05	Sec31a	Sec31 homolog A (S. cerevisiae)	4409	0.19
chr2_155539663_155540189	0.05	Mipep-ps	mitochondrial intermediate peptidase, pseudogene	2721	0.13
chr13_25791444_25791595	0.05	Gm11350	predicted gene 11350	110376	0.07
chr3_18877716_18877898	0.05	Gm30341	predicted gene, 30341	124730	0.06
chr8_115089778_115090403	0.05	Gm22556	predicted gene, 22556	37177	0.23
chr1_173599258_173599409	0.05	Ifi213	interferon activated gene 213	59	0.97
chr2_96253373_96253545	0.05	Lrrc4c	leucine rich repeat containing 4C	64710	0.14
chr1_173491252_173491410	0.05	Ifi206	interferon activated gene 206	290	0.89
chr6_128522025_128522231	0.05	Pzp	PZP, alpha-2-macroglobulin like	4575	0.11
chr1_136441030_136441213	0.05	Ddx59	DEAD (Asp-Glu-Ala-Asp) box polypeptide 59	8719	0.15
chr1_54850108_54850451	0.05	Ankrd44	ankyrin repeat domain 44	34432	0.16
chr2_102694561_102694718	0.05	Slc1a2	solute carrier family 1 (glial high affinity glutamate transporter), member 2	11717	0.23
chr13_24945328_24945479	0.05	Gpld1	glycosylphosphatidylinositol specific phospholipase D1	2251	0.21
chr4_144977157_144977352	0.05	Vps13d	vacuolar protein sorting 13D	6707	0.21
chr16_91434651_91434809	0.05	Gm46562	predicted gene, 46562	23691	0.08
chr15_62529162_62529323	0.05	Gm41333	predicted gene, 41333	38733	0.21
chr18_5091846_5091997	0.05	Svil	supervillin	2460	0.4
chr13_44890716_44890885	0.05	Jarid2	jumonji, AT rich interactive domain 2	50017	0.13
chr18_39357013_39357188	0.05	Arhgap26	Rho GTPase activating protein 26	5483	0.2
chr12_41081814_41082149	0.05	Immp2l	IMP2 inner mitochondrial membrane peptidase-like (S. cerevisiae)	13669	0.21
chr10_26828824_26829011	0.05	Arhgap18	Rho GTPase activating protein 18	6315	0.25
chr15_43702286_43702631	0.05	Gm2140	predicted gene 2140	106003	0.07
chr17_46031864_46032231	0.05	Vegfa	vascular endothelial growth factor A	232	0.92
chr18_10413650_10413816	0.05	Greb1l	growth regulation by estrogen in breast cancer-like	44492	0.12
chr11_50175754_50175938	0.05	Mrnip	MRN complex interacting protein	939	0.42
chrX_84312323_84312721	0.05	Dmd	dystrophin, muscular dystrophy	235873	0.02
chr5_100371529_100371680	0.05	Sec31a	Sec31 homolog A (S. cerevisiae)	1880	0.3
chr15_55245352_55245503	0.05	Gm26296	predicted gene, 26296	17176	0.21
chr4_141161528_141161683	0.05	Fbxo42	F-box protein 42	13683	0.11
chr13_72293404_72293565	0.05	Gm4052	predicted gene 4052	56737	0.14

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 Sox5_Sry

View svg image
View png image

Gene Ontology Analysis

Gene overrepresentation in biological process category:

Total log-likelihood	Term	Description
0.1	GO:0034196	acylglycerol transport(GO:0034196) triglyceride transport(GO:0034197)
0.1	GO:2000504	positive regulation of blood vessel remodeling(GO:2000504)
0.1	GO:0000189	MAPK import into nucleus(GO:0000189)
0.1	GO:0010986	positive regulation of lipoprotein particle clearance(GO:0010986)
0.0	GO:0090259	regulation of retinal ganglion cell axon guidance(GO:0090259)
0.0	GO:1903800	positive regulation of production of miRNAs involved in gene silencing by miRNA(GO:1903800)
0.0	GO:0071879	positive regulation of adrenergic receptor signaling pathway(GO:0071879)

Gene overrepresentation in cellular component category:

Log-likelihood per target	Total log-likelihood	Term	Description
0.0	0.0	GO:0097487	multivesicular body, internal vesicle(GO:0097487)

Gene overrepresentation in molecular function category:

Total log-likelihood	Term	Description
0.1	GO:0070538	oleic acid binding(GO:0070538)
0.1	GO:0071614	linoleic acid epoxygenase activity(GO:0071614)
0.0	GO:0048408	epidermal growth factor binding(GO:0048408)
0.1	GO:0015016	[heparan sulfate]-glucosamine N-sulfotransferase activity(GO:0015016)
0.0	GO:1990829	C-rich single-stranded DNA binding(GO:1990829)
0.0	GO:0008526	phosphatidylinositol transporter activity(GO:0008526)

Gene overrepresentation in curated gene sets: REACTOME pathways category:

Log-likelihood per target	Total log-likelihood	Term	Description
0.0	0.1	REACTOME RNA POL I PROMOTER OPENING	Genes involved in RNA Polymerase I Promoter Opening