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ENCODE: H3K4me3 ChIP-Seq of different mouse 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: 0.03

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_48705941_48707011	43478	0.123843	-0.52	2.3e-05	Click!
Barx1	chr13_48653777_48653928	9146	0.164548	-0.40	1.6e-03	Click!
Barx1	chr13_48672349_48673068	9710	0.181755	-0.37	3.5e-03	Click!
Barx1	chr13_48690152_48690303	27229	0.156064	-0.36	4.4e-03	Click!
Barx1	chr13_48662411_48662862	362	0.861298	-0.36	4.5e-03	Click!
Dlx6	chr6_6863311_6863498	70	0.942139	-0.57	2.4e-06	Click!
Dlx6	chr6_6862423_6863134	556	0.564015	-0.56	4.1e-06	Click!
Dlx6	chr6_6863513_6864355	136	0.908655	-0.49	7.4e-05	Click!
Lhx9	chr1_138837882_138838896	4040	0.177311	-0.62	1.1e-07	Click!
Lhx9	chr1_138836757_138837880	3659	0.185652	-0.56	3.4e-06	Click!
Lhx9	chr1_138839332_138840406	2560	0.219839	-0.55	4.9e-06	Click!
Lhx9	chr1_138845983_138846955	1110	0.419252	-0.54	7.7e-06	Click!
Lhx9	chr1_138840955_138842561	671	0.633639	-0.53	1.4e-05	Click!
Msx1	chr5_37821115_37822599	2725	0.276938	-0.47	1.5e-04	Click!
Msx1	chr5_37822743_37822894	1764	0.368392	-0.43	6.7e-04	Click!
Msx1	chr5_37826544_37829286	3332	0.253918	-0.39	1.8e-03	Click!
Msx1	chr5_37825667_37826469	1485	0.421691	-0.34	7.9e-03	Click!
Msx1	chr5_37816984_37817928	7126	0.201534	-0.34	8.1e-03	Click!
Rax	chr18_65937605_65939242	305	0.714707	-0.32	1.4e-02	Click!
Rax	chr18_65941567_65941718	1855	0.183964	-0.29	2.5e-02	Click!
Rax	chr18_65941284_65941553	1631	0.207199	-0.24	6.8e-02	Click!
Rax	chr18_65939857_65940008	145	0.905969	-0.17	2.0e-01	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
chr19_45446379_45446948	0.02	Btrc	beta-transducin repeat containing protein	1155	0.47
chr1_165765873_165766425	0.01	Creg1	cellular repressor of E1A-stimulated genes 1	2403	0.15
chr17_71267820_71268552	0.01	Emilin2	elastin microfibril interfacer 2	411	0.81
chr8_122697299_122697450	0.01	Gm10612	predicted gene 10612	486	0.63
chr6_72109159_72109629	0.01	Gm29438	predicted gene 29438	5193	0.13
chr18_84858127_84859558	0.01	Gm16146	predicted gene 16146	705	0.62
chr7_28432065_28432228	0.01	Samd4b	sterile alpha motif domain containing 4B	4045	0.1
chr12_40034316_40035114	0.01	Arl4a	ADP-ribosylation factor-like 4A	2652	0.25
chr11_107337425_107337975	0.01	Pitpnc1	phosphatidylinositol transfer protein, cytoplasmic 1	63	0.82
chr4_109475656_109476957	0.01	Rnf11	ring finger protein 11	369	0.86
chr6_90324065_90325476	0.01	Chst13	carbohydrate sulfotransferase 13	415	0.73
chr13_90844060_90844211	0.01	Gm18518	predicted gene, 18518	23471	0.19
chr15_102998770_103001153	0.01	Hoxc6	homeobox C6	568	0.54
chr12_63141893_63142044	0.01	Gm48415	predicted gene, 48415	28213	0.23
chr10_127524483_127527059	0.01	Shmt2	serine hydroxymethyltransferase 2 (mitochondrial)	3327	0.13
chr12_21286427_21286936	0.00	Cpsf3	cleavage and polyadenylation specificity factor 3	282	0.56
chr5_137981579_137981833	0.00	Azgp1	alpha-2-glycoprotein 1, zinc	138	0.91
chr6_120579351_120580579	0.00	Gm44124	predicted gene, 44124	211	0.9
chrX_36561829_36562111	0.00	Pgrmc1	progesterone receptor membrane component 1	36236	0.15
chr5_122499512_122499696	0.00	Atp2a2	ATPase, Ca++ transporting, cardiac muscle, slow twitch 2	2013	0.17
chr4_59292243_59292651	0.00	Susd1	sushi domain containing 1	23519	0.17
chr10_26861885_26862036	0.00	Arhgap18	Rho GTPase activating protein 18	1382	0.51
chr16_55968878_55969045	0.00	Rpl24	ribosomal protein L24	1034	0.33
chrX_74272032_74272366	0.00	Snora70	small nucleolar RNA, H/ACA box 70	285	0.49
chr3_89251147_89252390	0.00	Krtcap2	keratinocyte associated protein 2	2901	0.08
chr15_25623874_25624025	0.00	Myo10	myosin X	1400	0.41
chr17_27907820_27908197	0.00	Gm49801	predicted gene, 49801	205	0.55
chr1_185204747_185204898	0.00	Rab3gap2	RAB3 GTPase activating protein subunit 2	644	0.65
chr13_105223990_105224297	0.00	Gm25631	predicted gene, 25631	745	0.75
chr4_49633576_49634072	0.00	Rnf20	ring finger protein 20	1665	0.35
chr13_17798092_17798243	0.00	Cdk13	cyclin-dependent kinase 13	3164	0.17
chr4_33248789_33249100	0.00	Pnrc1	proline-rich nuclear receptor coactivator 1	434	0.81
chr15_7480037_7480275	0.00	Egflam	EGF-like, fibronectin type III and laminin G domains	81761	0.09
chr13_83566010_83566411	0.00	Mef2c	myocyte enhancer factor 2C	6138	0.29
chr12_71854490_71854641	0.00	Gm7985	predicted gene 7985	7274	0.22
chr3_54732807_54733381	0.00	Exosc8	exosome component 8	129	0.94
chr15_5235307_5235458	0.00	Ptger4	prostaglandin E receptor 4 (subtype EP4)	7328	0.14
chrX_74271838_74271989	0.00	Rpl10	ribosomal protein L10	76	0.84
chr13_102546187_102546470	0.00	Gm29927	predicted gene, 29927	43957	0.17
chr11_19941321_19941472	0.00	Spred2	sprouty-related EVH1 domain containing 2	13174	0.26
chr4_117303729_117304908	0.00	Rnf220	ring finger protein 220	4290	0.15
chr8_120289045_120289196	0.00	Gse1	genetic suppressor element 1, coiled-coil protein	60664	0.1
chr15_10685847_10685998	0.00	Rai14	retinoic acid induced 14	27618	0.16
chr16_3887471_3887622	0.00	Naa60	N(alpha)-acetyltransferase 60, NatF catalytic subunit	2777	0.11
chr6_148831609_148831850	0.00	Ipo8	importin 8	262	0.49
chr19_10828857_10829008	0.00	Cd6	CD6 antigen	924	0.41
chr2_30135275_30135623	0.00	Tbc1d13	TBC1 domain family, member 13	1581	0.23
chr7_49915184_49916836	0.00	Slc6a5	solute carrier family 6 (neurotransmitter transporter, glycine), member 5	4310	0.29
chr1_14208000_14208233	0.00	Eya1	EYA transcriptional coactivator and phosphatase 1	23376	0.18
chr1_105666225_105666644	0.00	Relch	RAB11 binding and LisH domain, coiled-coil and HEAT repeat containing	1993	0.25
chr7_4867774_4867925	0.00	Isoc2b	isochorismatase domain containing 2b	1656	0.18
chr7_116092687_116092838	0.00	1700003G18Rik	RIKEN cDNA 1700003G18 gene	336	0.62
chr16_93437966_93438557	0.00	1700029J03Rik	RIKEN cDNA 1700029J03 gene	12351	0.18
chr7_112956295_112957421	0.00	Rassf10	Ras association (RalGDS/AF-6) domain family (N-terminal) member 10	2896	0.26
chr15_83056191_83057345	0.00	Nfam1	Nfat activating molecule with ITAM motif 1	23462	0.11
chr15_58818735_58818886	0.00	Gm24041	predicted gene, 24041	668	0.62