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ENCODE: ATAC-seq of different tissues during embryonic development

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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 Msx1_Lhx9_Barx1_Rax_Dlx6

Z-value: 0.16

Motif logo

Transcription factors associated with Msx1_Lhx9_Barx1_Rax_Dlx6

Gene Symbol	Gene ID	Gene Info
Msx1 Ensembl NCBI MGI UniProt	ENSMUSG00000048450.10	Msx1
Lhx9 Ensembl NCBI MGI UniProt	ENSMUSG00000019230.8	Lhx9
Barx1 Ensembl NCBI MGI UniProt	ENSMUSG00000021381.4	Barx1
Rax Ensembl NCBI MGI UniProt	ENSMUSG00000024518.3	Rax
Dlx6 Ensembl NCBI MGI UniProt	ENSMUSG00000029754.7	Dlx6

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.

CRE	Gene	Distance	Association probability	Pearson corr. coef.	P-value	Plot
Barx1	chr13_48706371_48706545	43460	0.123879	-0.83	4.8e-15	Click!
Barx1	chr13_48706612_48706895	43755	0.123283	-0.78	1.5e-12	Click!
Barx1	chr13_48651181_48651375	11720	0.156451	0.74	9.8e-11	Click!
Barx1	chr13_48655897_48656048	7026	0.173591	-0.44	7.4e-04	Click!
Barx1	chr13_48662652_48662803	271	0.907584	-0.44	8.1e-04	Click!
Dlx6	chr6_6863513_6864202	59	0.941369	-0.86	2.7e-17	Click!
Dlx6	chr6_6862606_6862972	545	0.573597	-0.85	1.8e-16	Click!
Dlx6	chr6_6863261_6863422	7	0.951842	-0.84	6.4e-16	Click!
Lhx9	chr1_138843368_138843553	1003	0.465486	-0.88	1.4e-18	Click!
Lhx9	chr1_138843652_138843838	1288	0.372745	-0.86	2.6e-17	Click!
Lhx9	chr1_138844288_138844494	1934	0.260897	-0.86	4.8e-17	Click!
Lhx9	chr1_138842381_138842839	153	0.941699	-0.86	7.9e-17	Click!
Lhx9	chr1_138838221_138838525	4056	0.177077	-0.84	6.9e-16	Click!
Msx1	chr5_37857768_37858171	33386	0.148481	-0.78	1.8e-12	Click!
Msx1	chr5_37858239_37858390	33731	0.147626	-0.76	2.1e-11	Click!
Msx1	chr5_37825964_37826115	1456	0.428088	-0.66	3.7e-08	Click!
Msx1	chr5_37825773_37825924	1265	0.476529	-0.66	5.2e-08	Click!
Msx1	chr5_37835931_37836204	11484	0.196045	-0.63	2.2e-07	Click!
Rax	chr18_65941224_65941411	1530	0.220482	-0.81	6.2e-14	Click!
Rax	chr18_65941564_65941715	1852	0.184228	-0.69	5.3e-09	Click!
Rax	chr18_65939076_65939227	45	0.939697	-0.38	4.2e-03	Click!

Activity of the Msx1_Lhx9_Barx1_Rax_Dlx6 motif across conditions

Conditions sorted by the z-value of the Msx1_Lhx9_Barx1_Rax_Dlx6 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
chr17_71268038_71268559	0.30	Emilin2	elastin microfibril interfacer 2	299	0.88
chr4_59292306_59292644	0.28	Susd1	sushi domain containing 1	23491	0.17
chr5_33542035_33542598	0.24	Fam53a	family with sequence similarity 53, member A	86596	0.05
chr1_165765728_165766269	0.24	Creg1	cellular repressor of E1A-stimulated genes 1	2252	0.15
chr11_107337855_107338006	0.20	Gm11716	predicted gene 11716	120	0.72
chr15_97229797_97229962	0.20	Pced1b	PC-esterase domain containing 1B	17228	0.19
chr13_104285003_104285221	0.18	Adamts6	a disintegrin-like and metallopeptidase (reprolysin type) with thrombospondin type 1 motif, 6	2723	0.29
chr13_90844052_90844203	0.18	Gm18518	predicted gene, 18518	23479	0.19
chr6_120579566_120580923	0.17	Gm44124	predicted gene, 44124	68	0.96
chr10_105423144_105423438	0.16	Gm48203	predicted gene, 48203	29005	0.15
chr1_191592063_191592214	0.15	Gm37349	predicted gene, 37349	5509	0.16
chr5_137981681_137981832	0.15	Azgp1	alpha-2-glycoprotein 1, zinc	188	0.88
chr2_6098764_6098915	0.14	Proser2	proline and serine rich 2	31300	0.13
chr18_84858298_84858518	0.14	Gm16146	predicted gene 16146	1139	0.43
chr5_86065496_86065926	0.13	Cenpc1	centromere protein C1	128	0.92
chr6_72109263_72109487	0.13	Gm29438	predicted gene 29438	5174	0.13
chr12_71854387_71854538	0.12	Gm7985	predicted gene 7985	7171	0.22
chr15_10685814_10686120	0.12	Rai14	retinoic acid induced 14	27573	0.16
chr2_128565979_128566130	0.09	Gm14006	predicted gene 14006	7820	0.14
chr12_116938001_116938505	0.09	Gm48119	predicted gene, 48119	85151	0.1
chr15_102999185_102999572	0.09	Hoxc6	homeobox C6	1121	0.27
chr9_93186720_93187149	0.08	1700034K08Rik	RIKEN cDNA 1700034K08 gene	181195	0.03
chr3_141952957_141953255	0.08	Bmpr1b	bone morphogenetic protein receptor, type 1B	21583	0.27
chr5_100199218_100199369	0.08	Gm9932	predicted gene 9932	2682	0.25
chr15_99130441_99130592	0.07	Gm25183	predicted gene, 25183	2656	0.15
chr11_19941233_19941710	0.06	Spred2	sprouty-related EVH1 domain containing 2	13099	0.26
chr7_45216791_45217034	0.05	Tead2	TEA domain family member 2	239	0.77
chr18_67536356_67536550	0.04	Spire1	spire type actin nucleation factor 1	12799	0.16
chr8_77251232_77251390	0.04	Gm45406	predicted gene 45406	31550	0.15
chr6_39455848_39456029	0.04	Dennd2a	DENN/MADD domain containing 2A	14386	0.13
chr14_121383859_121384181	0.04	Gm49031	predicted gene, 49031	1936	0.33
chr8_47036614_47036956	0.03	4930579M01Rik	RIKEN cDNA 4930579M01 gene	1392	0.42
chr7_116092643_116093012	0.03	1700003G18Rik	RIKEN cDNA 1700003G18 gene	271	0.66
chr7_101896553_101896858	0.03	Anapc15	anaphase promoting complex C subunit 15	158	0.89
chr13_91128573_91128974	0.03	Atg10	autophagy related 10	3163	0.34
chr12_21286763_21286960	0.03	Cpsf3	cleavage and polyadenylation specificity factor 3	462	0.45
chr2_94002409_94002585	0.03	Alkbh3	alkB homolog 3, alpha-ketoglutarate-dependent dioxygenase	2690	0.21
chr5_49813468_49813730	0.03	Gm7988	predicted gene 7988	88703	0.09
chr12_112948465_112948616	0.02	Gm26583	predicted gene, 26583	1972	0.16
chr1_63995942_63996104	0.01	Gm13749	predicted gene 13749	31296	0.16
chr16_87597580_87598021	0.00	Gm22808	predicted gene, 22808	23320	0.15
chr6_148831698_148831943	0.00	Ipo8	importin 8	353	0.47
chr11_97702477_97703034	0.00	Psmb3	proteasome (prosome, macropain) subunit, beta type 3	644	0.45
chr2_3764227_3764378	0.00	Fam107b	family with sequence similarity 107, member B	6406	0.19