Motifome comparison between modern human, Neanderthal and Denisovan

BMC Genomics

Table 5 Top 10 octamers from different genomic sub-regions in Denisovan

Motif	Observed	Expected	Score	JASPAR annotation
Core promoters
GGGGCGGG	17,407	82.475	0.995	EGR1\|KLF5\|SP1\|SP2
GGGCGGGG	17,780	82.475	0.995
CCCGCCCC	16,718	82.475	0.995
CCCCGCCC	17,676	82.475	0.995
GGCGGGGC	13,917	82.475	0.994	EGR1\|KLF5\|SP1\|SP2
GCCCCGCC	13,714	82.475	0.994
GGGGGCGG	10,283	82.475	0.992
CCGCCCCC	9785	82.475	0.992
GGCGGCGG	8520	82.475	0.99
GCGGGGCG	7806	82.475	0.99	EGR1\|SP1\|SP2\|TFAP2C
Proximal promoters
GGGCGGGG	26,905	280.231	0.99
CCCCGCCC	27,739	280.231	0.99	EGR1\|KLF5\|SP1\|SP2
GGGGCGGG	25,911	280.231	0.989	E2F1
CCCGCCCC	26,181	280.231	0.989	EGR1\|KLF5\|SP1\|SP2
GCCCCGCC	20,826	280.231	0.987	EGR1\|KLF5\|SP1\|SP2
GGCGGGGC	19,887	280.231	0.986
GGGGGCGG	16,398	280.231	0.983	CTCF
CCGCCCCC	15,932	280.231	0.983	EGR1\|SP1\|SP2
GGCGGCGG	14,897	280.231	0.982
GCGGCGGC	14,477	280.231	0.981
Distal promoters
CAGGCTGG	93,573	1749.587	0.982
CCAGGCTG	89,626	1749.587	0.981
CCAGCCTG	88,343	1749.587	0.981
CAGCCTGG	85,501	1749.587	0.98
GCCTCCCA	78,433	1749.587	0.978
GGGCGGGG	35,288	844.888	0.977
CCCCGCCC	36,139	844.888	0.977	EGR1\|KLF5\|SP1\|SP2
CAGCCTCC	75,312	1749.587	0.977
GGAGGCTG	71,186	1749.587	0.976
GCCTGGGC	48,884	1215.815	0.976	NFYB
Introns
CAGGCTGG	3,328,904	83,571.71	0.976
CCAGGCTG	3,208,495	83,571.71	0.975
CCAGCCTG	3,097,321	83,571.71	0.974
CAGCCTGG	2,984,998	83,571.71	0.973
GCCTCCCA	2,849,031	83,571.71	0.972
TTTTTTTT	23,869,680	742,109.9	0.97
TGGGAGGC	2,675,429	83,571.71	0.97	TAL1::GATA1
CAGCCTCC	2,724,864	83,571.71	0.97
GGAGGCTG	2,573,566	83,571.71	0.969
CCTCAGCC	2,528,019	83,571.71	0.968

The motif, observed and expected occurrence, the motif score as well as any corresponding annotation from the JASPAR database are all listed for the top 10 motifs from the core, proximal, and distal promoters as well as all introns

ISSN: 1471-2164