HNRNPA1

This analysis report summarizes HNRNPA1 eCLIP data from ENCODE. The current tab provides an overview of the results, and the other tabs list identified peaks and motifs.

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Experiment Summary

Experiment ID	File ID	Sample	Antibody source	Antibody ID	Antibody lot	Release date	Laboratory	Number of peaks
ENCSR769UEW	ENCFF797GSK	HepG2	Santa Cruz Biotech	sc-32301	I2413	2015-07-15	Gene Yeo, UCSD	87
ENCSR154HRN	ENCFF392AEV	K562	Santa Cruz Biotech	sc-32301	I2413	2015-07-15	Gene Yeo, UCSD	201

HNRNPA1 Peak Assignments

The following plots show the assignment of peaks into different genic features:

Introns contain other subdivisions, please see the subsequent plot for a breakdown of those features.

This plot is interactive. You can hover over the bars to see the percentage and number of identified peaks. You can select which features to show by toggling the region names in the legend, and you can download the plot by moving your mouse to the top of the plot and clicking on the camera icon.

HNRNPA1 Intron Assignments

The following plots show the assignment of peaks into different intronic features:

5’ splice site: the peak is within the first 100 bp of an intron (5’ to 3’ direction
3’ splice site: the peak is within the last 100 bp of an intron (5’ to 3’ direction)
Proximal intron: the peak is within 100 bp to 500 bp of the nearest exon
Distal intron: greater than 500 bp away from the nearest exon

HNRNPA1 Motifs

The following plot shows a summary of the top five motifs by significance in each experiment. Motifs were detected with varying length parameters, you may observe a similar motif with different number of bases included multiple times. A motif present in more peaks and with a higher significance will be in the upper right quadrant of the plot, while the lower left quadrant has motifs that are less significant and in fewer peaks.

The following tables contain called HNRNPA1 peaks. To identify peaks, clusters (regions of read enrichment) in the immunoprecipitated (IP) samples were found using the peak calling tool CLIPper. To account for background signal, a cluster was identified as a peak if the log₂ fold enrichment over input was ≥ 3 and the p-value ≤ 0.001.

Peaks were annotated using transcript information from GENCODE. Each annotated peak is labeled with specific annotation feature types, first split by coding and non-coding transcripts, then by transcript regions, and then by intron/exon proximity regions. For overlapping transcript regions, the following hierarchy is used to label the region: coding sequence (CDS), 5’ or 3’ untranslated region (UTR), intron, non-coding exon, then non-coding intron. For example, if a peak is in the 5’ UTR of one transcript that overlaps an intron of another transcript, the peak region will be labeled as 5’ UTR. All gene annotations are from GENCODE release v41.

The following columns are included in the tables:

Chromosome: chromosome where the peak is located.
Peak start: start coordinate for the peak.
Peak stop: stop coordinate for the peak.
Strand: strand of DNA where the peak was called.
-log₁₀(p-value): significance of the cluster call by CLIPper. Values are log transformed so a larger number indicates a greater significance.
log₂(fold change): log transformed fold enrichment of the IP signal over a matched input.
Gene name: name (symbol) of the gene that overlaps with the peak.
Ensembl ID: unique identifer of the gene that overlaps with the peak.
Feature: which part of the listed gene overlaps with the peak.

Please note, this table is interactive. You can search for specific genes or features, and can sort the table by any of the columns.

ENCSR769UEW (HepG2) Peaks

Chromosome	Peak start	Peak stop	Strand	-log₁₀(p-value)	log₂(fold change)	Gene name	Ensembl ID	Feature
chr11	2,693,267	2,693,280	-	3.438	3.865	KCNQ1OT1	ENSG00000269821.1	ncRNA
chr11	65,504,222	65,504,244	+	23.133	3.301	MALAT1	ENSG00000251562.10	ncRNA
chr11	65,504,201	65,504,222	+	24.988	3.066	MALAT1	ENSG00000251562.10	ncRNA
chr3	30,685,358	30,685,427	+	3.389	3.712	TGFBR2	ENSG00000163513.19	Distal intron
chr11	65,499,175	65,499,204	+	12.767	3.665	MALAT1	ENSG00000251562.10	ncRNA
chrX	133,888,816	133,888,938	-	6.951	3.645	GPC3	ENSG00000147257.16	Distal intron
chrX	133,923,348	133,923,397	-	4.430	3.158	GPC3	ENSG00000147257.16	Distal intron
chr2	42,170,612	42,170,700	+	3.205	3.640	EML4	ENSG00000143924.19	Distal intron
chr17	15,501,437	15,501,522	-	3.402	3.025	TVP23C-CDRT4	ENSG00000259024.7	Distal intron
chr11	2,681,569	2,681,629	-	9.376	3.569	KCNQ1OT1	ENSG00000269821.1	ncRNA
chr2	152,365,829	152,365,901	+	3.042	3.445	FMNL2	ENSG00000157827.20	Distal intron
chrX	133,872,988	133,873,093	-	5.535	4.335	GPC3	ENSG00000147257.16	Distal intron
chr11	2,677,070	2,677,161	-	6.368	3.296	KCNQ1OT1	ENSG00000269821.1	ncRNA
chrX	133,895,055	133,895,104	-	3.934	3.188	GPC3	ENSG00000147257.16	Distal intron
chr11	2,698,241	2,698,280	-	3.438	4.010	KCNQ1OT1	ENSG00000269821.1	ncRNA
chrX	133,845,518	133,845,569	-	5.246	3.643	GPC3	ENSG00000147257.16	Distal intron
chr2	152,341,907	152,342,026	+	3.781	3.054	FMNL2	ENSG00000157827.20	Distal intron
chr12	102,854,449	102,854,511	-	4.839	4.020	PAH	ENSG00000171759.10	Distal intron
chr7	26,190,580	26,190,689	-	3.800	3.896	HNRNPA2B1	ENSG00000122566.22	3' UTR
chr19	56,834,887	56,834,946	-	4.320	3.129	ZIM2\|PEG3	ENSG00000198300.14\|\|ENSG00000269699.7	Distal intron
chr14	23,324,758	23,324,773	+	3.960	3.080	PABPN1	ENSG00000100836.11	3' UTR
chr20	31,682,084	31,682,152	-	3.613	3.831	BCL2L1	ENSG00000171552.14	Distal intron
chr11	65,425,730	65,425,737	+	13.172	3.774	NEAT1	ENSG00000245532.11	ncRNA
chr11	65,425,737	65,425,756	+	10.657	3.416	NEAT1	ENSG00000245532.11	ncRNA
chr17	55,283,920	55,283,979	+	3.980	3.896	HLF	ENSG00000108924.14	Distal intron
chrX	133,884,868	133,884,932	-	3.042	3.510	GPC3	ENSG00000147257.16	Distal intron
chrX	133,858,401	133,858,469	-	5.429	3.508	GPC3	ENSG00000147257.16	Distal intron
chr17	43,531,292	43,531,346	-	3.592	3.063	ETV4	ENSG00000175832.13	Distal intron
chrX	133,752,490	133,752,712	-	7.114	3.756	GPC3	ENSG00000147257.16	Distal intron
chr20	49,284,065	49,284,172	+	4.323	3.261	ZFAS1	ENSG00000177410.13	ncRNA
chr12	53,041,614	53,041,639	+	3.230	3.590	EIF4B	ENSG00000063046.18	3' UTR
chr11	65,425,122	65,425,146	+	26.509	3.243	NEAT1	ENSG00000245532.11	ncRNA
chr11	65,425,147	65,425,157	+	26.104	3.133	NEAT1	ENSG00000245532.11	ncRNA
chr11	65,425,157	65,425,180	+	34.632	3.055	NEAT1	ENSG00000245532.11	ncRNA
chr2	197,419,483	197,419,577	-	12.765	4.339	SF3B1	ENSG00000115524.17	3' UTR
chrX	133,949,057	133,949,105	-	3.759	3.074	GPC3	ENSG00000147257.16	Distal intron
chr8	17,907,505	17,907,560	-	4.099	3.180	FGL1	ENSG00000104760.17	Distal intron
chr11	65,502,732	65,502,742	+	11.767	3.270	MALAT1	ENSG00000251562.10	ncRNA
chr14	21,257,753	21,257,843	-	4.734	3.213	HNRNPC	ENSG00000092199.19	Distal intron
chrX	154,400,000	154,400,056	+	4.873	3.214	RPL10	ENSG00000147403.18	5' splice site
chr11	2,680,557	2,680,604	-	3.592	3.020	KCNQ1OT1	ENSG00000269821.1	ncRNA
chr3	30,693,316	30,693,384	+	5.702	4.342	TGFBR2	ENSG00000163513.19	3' UTR
chr12	9,081,448	9,081,511	-	4.147	3.884	A2M	ENSG00000175899.15	Distal intron
chr11	2,683,596	2,683,654	-	5.232	3.173	KCNQ1OT1	ENSG00000269821.1	ncRNA
chr8	120,804,141	120,804,247	-	4.837	4.027	SNTB1	ENSG00000172164.15	Distal intron
chr2	21,042,813	21,042,864	-	14.662	4.519	APOB	ENSG00000084674.15	Proximal intron
chr8	120,757,068	120,757,129	-	4.353	4.056	SNTB1	ENSG00000172164.15	Distal intron
chrX	154,400,128	154,400,195	+	3.417	3.624	RPL10	ENSG00000147403.18	Proximal intron
chr7	26,190,782	26,190,840	-	3.417	3.696	HNRNPA2B1	ENSG00000122566.22	3' UTR
chr3	48,716,685	48,716,721	-	9.551	5.546	IP6K2	ENSG00000068745.15	Proximal intron
chr3	48,716,670	48,716,685	-	7.766	5.340	IP6K2	ENSG00000068745.15	Proximal intron
chr11	65,505,073	65,505,085	+	45.398	4.292	MALAT1	ENSG00000251562.10	ncRNA
chr11	65,505,055	65,505,073	+	23.922	3.878	MALAT1	ENSG00000251562.10	ncRNA
chrX	133,904,697	133,904,787	-	3.108	3.039	GPC3	ENSG00000147257.16	Distal intron
chr11	65,503,229	65,503,242	+	41.977	3.394	MALAT1	ENSG00000251562.10	ncRNA
chr11	2,671,980	2,672,078	-	5.392	3.073	KCNQ1OT1	ENSG00000269821.1	ncRNA
chrX	71,547,553	71,547,627	+	4.323	3.440	OGT	ENSG00000147162.15	Proximal intron
chr8	120,810,093	120,810,169	-	8.124	4.659	SNTB1	ENSG00000172164.15	Distal intron
chr6	158,561,633	158,561,719	+	4.506	3.208	TMEM181	ENSG00000146433.10	Distal intron
chrX	133,900,403	133,900,498	-	4.430	3.422	GPC3	ENSG00000147257.16	Distal intron
chr3	172,059,983	172,060,082	+	5.759	3.678	FNDC3B	ENSG00000075420.13	Distal intron
chr20	43,459,615	43,459,691	+	3.754	3.216	ENSG00000288000\|SRSF6	ENSG00000288000.1\|\|ENSG00000124193.16	3' splice site
chr11	64,775,085	64,775,187	-	4.167	3.925	SF1	ENSG00000168066.21	Distal intron
chr11	93,734,370	93,734,446	-	3.417	3.607	TAF1D	ENSG00000166012.17	ncRNA
chr14	94,620,589	94,620,652	+	3.115	3.780	SERPINA3	ENSG00000196136.18	Distal intron
chr11	65,501,742	65,501,759	+	65.515	3.112	MALAT1	ENSG00000251562.10	ncRNA
chr3	133,759,277	133,759,283	+	19.601	3.135	TF	ENSG00000091513.16	CDS
chr2	21,040,340	21,040,370	-	5.246	3.482	APOB	ENSG00000084674.15	Distal intron
chr2	42,305,012	42,305,098	+	3.022	3.555	EML4	ENSG00000143924.19	Proximal intron
chrX	133,584,368	133,584,456	-	3.572	3.830	GPC3	ENSG00000147257.16	Distal intron
chr6	119,289,837	119,289,908	-	4.540	4.071	MAN1A1	ENSG00000111885.7	Distal intron
chr5	139,283,173	139,283,184	+	6.163	3.537	SNHG4	ENSG00000281398.4	ncRNA
chr5	27,481,712	27,481,757	+	3.205	3.537	PURPL	ENSG00000250337.9	ncRNA
chrX	133,820,685	133,820,777	-	3.089	3.787	GPC3	ENSG00000147257.16	Distal intron
chr5	179,620,601	179,620,676	-	7.138	3.193	HNRNPH1	ENSG00000169045.17	Proximal intron
chr20	31,710,723	31,710,818	-	3.572	3.721	BCL2L1	ENSG00000171552.14	Distal intron
chr14	94,618,347	94,618,377	+	3.115	3.719	SERPINA3	ENSG00000196136.18	5' UTR
chr14	89,202,084	89,202,148	-	3.417	3.944	FOXN3	ENSG00000053254.16	Distal intron
chr21	44,775,905	44,775,914	-	6.109	3.177	UBE2G2	ENSG00000184787.19	Distal intron
chr21	44,775,869	44,775,905	-	6.133	3.169	UBE2G2	ENSG00000184787.19	Distal intron
chr3	186,618,999	186,619,044	+	5.220	3.373	AHSG	ENSG00000145192.13	Proximal intron
chr11	2,698,399	2,698,458	-	6.351	3.009	KCNQ1OT1	ENSG00000269821.1	ncRNA
chrX	133,911,357	133,911,407	-	3.264	3.642	GPC3	ENSG00000147257.16	Distal intron
chr2	11,584,181	11,584,251	+	3.287	3.544	GREB1	ENSG00000196208.14	Distal intron
chr3	172,134,150	172,134,208	+	3.022	3.572	FNDC3B	ENSG00000075420.13	Distal intron
chr5	27,483,559	27,483,602	+	4.837	4.015	PURPL	ENSG00000250337.9	ncRNA
chrX	133,885,083	133,885,155	-	3.459	3.736	GPC3	ENSG00000147257.16	Distal intron

ENCSR154HRN (K562) Peaks

Chromosome	Peak start	Peak stop	Strand	-log₁₀(p-value)	log₂(fold change)	Gene name	Ensembl ID	Feature
chr16	70,268,642	70,268,702	-	3.665	3.177	AARS1	ENSG00000090861.17	Proximal intron
chr1	161,118,410	161,118,619	+	3.338	3.068	NIT1	ENSG00000158793.14	CDS
chr11	86,045,876	86,046,000	-	4.831	3.058	PICALM	ENSG00000073921.18	Distal intron
chr22	19,453,183	19,453,228	-	4.192	3.573	UFD1	ENSG00000070010.19	Distal intron
chr1	35,191,031	35,191,109	-	3.103	3.979	SFPQ	ENSG00000116560.12	3' splice site
chr2	167,878,377	167,878,448	-	3.018	3.815	B3GALT1-AS1	ENSG00000235335.3	ncRNA
chr2	144,516,319	144,516,381	-	3.849	3.984	ZEB2	ENSG00000169554.23	5' UTR
chr12	121,334,667	121,334,776	-	4.457	3.504	ANAPC5	ENSG00000089053.13	Distal intron
chr6	26,124,880	26,124,974	+	5.263	3.726	H2AC6	ENSG00000180573.10	Proximal intron
chr6	87,700,869	87,700,938	-	12.896	3.791	AKIRIN2	ENSG00000135334.9	Distal intron
chrX	71,541,582	71,541,658	+	4.916	3.418	OGT	ENSG00000147162.15	Distal intron
chr7	158,740,052	158,740,123	-	3.307	3.441	ESYT2	ENSG00000117868.18	Distal intron
chr6	36,519,397	36,519,467	-	3.306	3.808	STK38	ENSG00000112079.9	Distal intron
chr9	97,572,083	97,572,131	+	3.018	3.633	TMOD1	ENSG00000136842.14	Distal intron
chr1	28,897,658	28,897,707	+	3.307	3.049	EPB41	ENSG00000159023.22	Distal intron
chr13	110,904,822	110,904,878	-	5.982	3.075	ANKRD10	ENSG00000088448.14	Distal intron
chr12	120,688,735	120,688,789	+	3.018	3.815	MLEC	ENSG00000110917.8	Distal intron
chr11	75,403,135	75,403,181	+	3.307	3.088	RPS3	ENSG00000149273.15	3' UTR
chr17	17,818,610	17,818,706	-	5.494	3.854	SREBF1	ENSG00000072310.18	Proximal intron
chr7	105,373,704	105,373,839	-	3.138	3.008	SRPK2	ENSG00000135250.17	Distal intron
chr20	5,569,048	5,569,108	-	4.314	3.305	GPCPD1	ENSG00000125772.14	Distal intron
chr7	123,745,741	123,745,797	-	3.961	3.010	WASL	ENSG00000106299.8	Distal intron
chr16	23,859,892	23,859,976	+	3.849	3.944	PRKCB	ENSG00000166501.14	Distal intron
chr21	34,104,561	34,104,671	+	4.192	3.469	SLC5A3	ENSG00000198743.7	3' UTR
chr17	35,832,262	35,832,330	+	3.146	3.003	TAF15	ENSG00000270647.7	Distal intron
chr6	35,380,156	35,380,248	+	3.146	3.257	PPARD	ENSG00000112033.14	Distal intron
chr19	54,460,281	54,460,306	+	13.002	3.585	LENG8	ENSG00000167615.17	3' UTR
chr3	37,245,306	37,245,354	+	3.146	3.109	GOLGA4	ENSG00000144674.18	Distal intron
chr10	1,047,605	1,047,750	-	3.405	3.153	IDI1	ENSG00000067064.13	Distal intron
chr3	9,390,643	9,390,710	-	3.571	3.855	THUMPD3-AS1	ENSG00000206573.11	ncRNA
chr6	31,532,347	31,532,398	-	3.405	3.047	DDX39B	ENSG00000198563.14	Proximal intron
chrX	71,540,256	71,540,322	+	3.018	3.794	OGT	ENSG00000147162.15	Distal intron
chr19	1,270,265	1,270,345	+	3.289	3.833	CIRBP	ENSG00000099622.14	Proximal intron
chr3	196,067,136	196,067,212	-	4.192	3.418	TFRC	ENSG00000072274.14	Proximal intron
chr17	46,947,067	46,947,179	+	4.103	4.125	GOSR2	ENSG00000108433.17	Distal intron
chr5	10,355,094	10,355,163	+	5.257	4.609	MARCHF6	ENSG00000145495.16	Distal intron
chr11	10,807,447	10,807,512	-	6.118	3.760	EIF4G2	ENSG00000110321.19	5' UTR
chr10	7,358,139	7,358,275	-	5.168	4.272	SFMBT2	ENSG00000198879.13	Distal intron
chr7	155,714,418	155,714,480	+	4.713	3.355	RBM33	ENSG00000184863.11	Distal intron
chr3	48,716,672	48,716,725	-	10.824	4.402	IP6K2	ENSG00000068745.15	Proximal intron
chr1	20,776,371	20,776,442	-	5.263	3.859	HP1BP3	ENSG00000127483.19	Proximal intron
chr19	15,297,313	15,297,397	-	3.307	3.160	BRD4	ENSG00000141867.19	Distal intron
chr22	47,807,845	47,808,006	+	4.129	4.084	EPIC1	ENSG00000224271.8	ncRNA
chr4	67,510,551	67,510,624	-	3.306	3.808	CENPC	ENSG00000145241.11	Distal intron
chr18	9,233,910	9,234,001	+	3.294	3.783	ANKRD12	ENSG00000101745.17	Distal intron
chr3	152,276,626	152,276,759	+	3.915	3.270	MBNL1	ENSG00000152601.18	Distal intron
chr20	35,724,590	35,724,658	-	6.397	3.622	RBM39	ENSG00000131051.24	CDS
chr22	38,491,507	38,491,592	-	8.290	4.266	DDX17	ENSG00000100201.23	Proximal intron
chr9	111,393,873	111,393,984	-	4.518	3.371	ECPAS	ENSG00000136813.15	Proximal intron
chr3	43,709,241	43,709,301	+	3.294	3.868	ABHD5	ENSG00000011198.10	Distal intron
chr10	125,096,390	125,096,500	-	3.146	3.201	CTBP2	ENSG00000175029.17	Distal intron
chr3	49,966,214	49,966,279	+	3.294	3.712	RBM6	ENSG00000004534.15	Distal intron
chr7	158,932,946	158,933,008	+	3.928	3.216	DYNC2I1	ENSG00000126870.16	Distal intron
chr11	2,681,565	2,681,618	-	6.360	3.131	KCNQ1OT1	ENSG00000269821.1	ncRNA
chr17	50,731,773	50,731,842	+	3.146	3.092	LUC7L3	ENSG00000108848.16	Distal intron
chr6	63,580,251	63,580,351	+	3.294	4.075	PTP4A1\|ENSG00000285976	ENSG00000285976.2\|\|ENSG00000112245.13	3' UTR
chr4	138,177,913	138,177,996	-	3.018	3.730	SLC7A11	ENSG00000151012.13	Distal intron
chr18	9,107,136	9,107,219	+	9.912	3.514	NDUFV2	ENSG00000178127.13	Distal intron
chr5	54,403,182	54,403,228	+	3.146	3.172	LINC01033	ENSG00000249069.8	ncRNA
chr9	131,204,365	131,204,439	+	4.314	3.368	NUP214	ENSG00000126883.19	Distal intron
chr7	121,080,216	121,080,275	+	3.294	3.868	CPED1	ENSG00000106034.18	Distal intron
chr8	108,248,367	108,248,470	-	3.928	3.394	EIF3E	ENSG00000104408.11	Proximal intron
chr19	47,274,512	47,274,619	+	3.138	3.008	nan	nan	Intergenic
chr9	37,220,102	37,220,207	+	3.571	3.833	ZCCHC7	ENSG00000147905.18	Distal intron
chr21	37,383,989	37,384,033	+	3.018	3.908	DYRK1A	ENSG00000157540.22	Distal intron
chr7	119,758,975	119,759,082	-	4.192	3.404	LINC02476	ENSG00000225546.6	ncRNA
chr17	82,484,698	82,484,771	+	3.571	3.897	NARF	ENSG00000141562.19	3' splice site
chr1	235,313,438	235,313,516	-	4.129	4.136	ARID4B	ENSG00000054267.22	Distal intron
chr17	56,897,538	56,897,617	-	3.513	3.856	TRIM25	ENSG00000121060.19	Distal intron
chr3	37,247,274	37,247,372	+	6.352	3.858	GOLGA4	ENSG00000144674.18	Distal intron
chr20	5,545,765	5,545,840	-	3.103	3.783	GPCPD1	ENSG00000125772.14	3' UTR
chr20	44,501,372	44,501,485	-	3.729	3.164	SERINC3	ENSG00000132824.14	3' splice site
chr7	105,539,690	105,539,808	+	5.533	3.592	RINT1	ENSG00000135249.8	Distal intron
chr21	8,401,817	8,401,846	+	8.648	3.370	ENSG00000280441	ENSG00000280441.3	ncRNA
chr6	170,551,731	170,551,805	-	3.146	3.201	PSMB1	ENSG00000008018.9	Distal intron
chr18	9,109,461	9,109,528	+	3.018	3.872	NDUFV2	ENSG00000178127.13	Distal intron
chr7	151,511,420	151,511,538	-	4.725	3.386	RHEB	ENSG00000106615.10	Distal intron
chr3	196,355,761	196,355,866	-	4.725	3.459	UBXN7	ENSG00000163960.12	3' UTR
chr11	3,050,779	3,050,931	-	5.130	3.149	CARS1	ENSG00000110619.18	Distal intron
chr10	74,025,718	74,025,771	+	3.018	3.752	VCL	ENSG00000035403.18	Distal intron
chr22	19,401,856	19,401,905	-	5.263	3.637	HIRA	ENSG00000100084.14	Distal intron
chr3	160,401,561	160,401,612	+	3.696	3.945	SMC4	ENSG00000113810.16	Proximal intron
chr7	23,520,415	23,520,469	-	3.294	3.783	TRA2A	ENSG00000164548.12	Distal intron
chr20	58,988,197	58,988,325	+	3.018	3.659	NELFCD	ENSG00000101158.15	Proximal intron
chr5	10,395,895	10,395,959	+	3.103	3.687	MARCHF6	ENSG00000145495.16	Distal intron
chr3	10,314,871	10,314,954	-	3.665	3.475	SEC13	ENSG00000157020.18	Proximal intron
chr4	78,870,481	78,870,581	+	3.665	3.539	BMP2K	ENSG00000138756.19	Proximal intron
chr10	28,545,944	28,546,004	+	3.018	3.683	WAC	ENSG00000095787.25	Distal intron
chr4	138,177,380	138,177,494	-	3.525	3.388	SLC7A11	ENSG00000151012.13	Distal intron
chr7	111,368,479	111,368,621	-	4.457	3.529	IMMP2L	ENSG00000184903.10	Distal intron
chr9	135,941,862	135,941,932	-	8.132	3.303	UBAC1	ENSG00000130560.9	Distal intron
chr7	105,065,828	105,065,913	+	3.018	3.834	KMT2E	ENSG00000005483.23	Distal intron
chr11	57,777,070	57,777,125	+	3.405	3.169	CTNND1	ENSG00000198561.16	Distal intron
chr19	55,345,669	55,345,728	+	3.306	3.808	KMT5C	ENSG00000133247.14	Proximal intron
chr19	52,094,533	52,094,593	-	3.289	3.877	ZNF841	ENSG00000197608.12	Distal intron
chr1	54,052,428	54,052,498	-	3.915	3.201	TMEM59	ENSG00000116209.12	Distal intron
chr16	67,171,599	67,171,683	+	6.098	3.260	NOL3	ENSG00000140939.14	Proximal intron
chr11	65,425,740	65,425,745	+	12.202	3.422	NEAT1	ENSG00000245532.11	ncRNA
chr1	151,051,818	151,051,863	-	3.729	3.265	CDC42SE1	ENSG00000197622.13	3' UTR
chr9	125,240,458	125,240,525	-	3.018	4.080	HSPA5	ENSG00000044574.9	Proximal intron
chr8	37,897,337	37,897,448	-	6.928	3.554	RAB11FIP1	ENSG00000156675.16	Distal intron
chr21	33,526,927	33,527,026	-	3.696	3.986	GART	ENSG00000159131.17	Distal intron
chr4	10,111,045	10,111,115	-	3.665	3.430	WDR1	ENSG00000071127.18	Distal intron
chr22	19,853,388	19,853,454	-	5.608	3.220	GNB1L\|RTL10	ENSG00000185838.14\|\|ENSG00000215012.9	Distal intron
chr7	23,530,351	23,530,405	-	3.294	3.888	TRA2A	ENSG00000164548.12	Distal intron
chr11	65,503,213	65,503,241	+	400.000	3.246	MALAT1	ENSG00000251562.10	ncRNA
chr21	38,057,256	38,057,359	-	3.405	3.084	KCNJ6	ENSG00000157542.11	Distal intron
chr17	32,474,015	32,474,103	+	3.720	4.003	PSMD11	ENSG00000108671.11	5' splice site
chr10	131,909,075	131,909,183	+	4.103	4.088	PPP2R2D	ENSG00000175470.20	Distal intron
chr6	150,987,542	150,987,636	+	3.525	3.108	MTHFD1L	ENSG00000120254.16	Distal intron
chr6	43,623,548	43,623,622	-	4.725	3.486	GTPBP2	ENSG00000172432.19	Proximal intron
chr2	58,214,523	58,214,590	-	3.018	3.659	FANCL	ENSG00000115392.13	Distal intron
chr3	119,459,148	119,459,230	-	4.129	4.185	TMEM39A	ENSG00000176142.13	Distal intron
chr10	60,785,921	60,786,106	+	4.725	3.500	CDK1	ENSG00000170312.17	Proximal intron
chr16	61,743,225	61,743,245	-	6.521	3.821	RN7SKP76	ENSG00000201289.1	ncRNA
chr16	61,743,210	61,743,225	-	5.704	3.236	RN7SKP76	ENSG00000201289.1	ncRNA
chr14	39,180,957	39,181,017	+	4.129	4.153	PNN	ENSG00000100941.9	CDS
chr11	65,425,121	65,425,160	+	41.050	4.548	NEAT1	ENSG00000245532.11	ncRNA
chr11	65,425,160	65,425,208	+	45.016	4.405	NEAT1	ENSG00000245532.11	ncRNA
chr2	55,022,756	55,022,815	-	5.805	3.659	RTN4	ENSG00000115310.19	Distal intron
chr1	35,180,697	35,180,752	-	4.993	3.854	SFPQ	ENSG00000116560.12	ncRNA
chr6	36,971,810	36,971,908	-	3.665	3.177	MTCH1	ENSG00000137409.21	Distal intron
chr15	43,794,799	43,794,897	+	3.146	3.075	SERF2	ENSG00000140264.21	3' UTR
chr4	102,822,987	102,823,062	-	3.146	3.109	UBE2D3	ENSG00000109332.20	Distal intron
chr1	30,991,901	30,991,982	-	3.018	3.854	PUM1	ENSG00000134644.16	Proximal intron
chr21	44,861,874	44,861,939	-	5.088	3.209	PTTG1IP	ENSG00000183255.12	5' UTR
chr5	151,807,168	151,807,255	+	3.018	3.815	G3BP1	ENSG00000145907.16	3' UTR
chr17	57,991,664	57,991,715	-	3.928	3.311	ENSG00000264112	ENSG00000264112.1	ncRNA
chr17	35,824,379	35,824,450	+	3.928	3.381	TAF15	ENSG00000270647.7	Proximal intron
chr5	54,092,677	54,092,723	-	4.457	3.383	ARL15	ENSG00000185305.12	Distal intron
chr2	112,658,151	112,658,242	+	3.405	3.185	SLC20A1	ENSG00000144136.11	Distal intron
chr11	86,053,043	86,053,141	-	4.831	3.181	PICALM	ENSG00000073921.18	Distal intron
chr9	125,240,561	125,240,642	-	6.928	3.441	HSPA5	ENSG00000044574.9	5' splice site
chr22	19,506,388	19,506,459	+	3.405	3.047	CDC45	ENSG00000093009.11	Distal intron
chr6	31,627,437	31,627,537	+	3.849	3.964	PRRC2A	ENSG00000204469.13	Proximal intron
chr11	5,477,374	5,477,459	-	4.744	3.008	HBG2\|HBE1	ENSG00000196565.15\|\|ENSG00000213931.7	Distal intron
chr19	10,819,678	10,819,755	+	3.729	3.354	DNM2	ENSG00000079805.19	Proximal intron
chr14	101,832,964	101,833,034	+	4.192	3.348	PPP2R5C	ENSG00000078304.20	Distal intron
chr16	70,551,012	70,551,147	+	3.338	3.029	SF3B3	ENSG00000189091.13	Distal intron
chr11	14,648,038	14,648,137	+	5.541	4.486	PDE3B	ENSG00000152270.9	Distal intron
chr2	197,419,500	197,419,579	-	3.665	3.368	SF3B1	ENSG00000115524.17	3' UTR
chr19	55,098,006	55,098,123	-	3.696	4.062	PPP1R12C	ENSG00000125503.13	Distal intron
chr1	29,165,597	29,165,728	-	5.982	3.101	SRSF4	ENSG00000116350.18	Distal intron
chr17	32,368,451	32,368,499	+	3.405	3.084	ZNF207	ENSG00000010244.19	Proximal intron
chr17	50,751,689	50,751,788	+	6.849	3.454	LUC7L3	ENSG00000108848.16	3' UTR
chr10	17,445,656	17,445,670	-	3.915	3.302	ST8SIA6	ENSG00000148488.17	Distal intron
chr3	177,170,218	177,170,293	-	3.294	3.760	TBL1XR1	ENSG00000177565.18	Distal intron
chr2	222,864,631	222,864,685	+	3.103	3.827	ACSL3	ENSG00000123983.15	Distal intron
chr2	172,582,399	172,582,482	+	6.092	3.249	PDK1	ENSG00000152256.14	Distal intron
chr16	89,431,878	89,431,947	-	3.917	3.146	ANKRD11	ENSG00000167522.17	Distal intron
chr16	20,684,936	20,684,963	+	5.805	3.646	ACSM3	ENSG00000005187.12	Distal intron
chr16	20,684,887	20,684,936	+	5.608	3.151	ACSM3	ENSG00000005187.12	Distal intron
chrX	154,765,054	154,765,157	+	3.146	3.075	DKC1	ENSG00000130826.19	5' UTR
chr1	29,064,450	29,064,534	+	3.306	3.852	EPB41	ENSG00000159023.22	Proximal intron
chr1	19,081,005	19,081,094	-	3.018	3.773	UBR4	ENSG00000127481.15	Proximal intron
chr20	58,651,759	58,651,809	+	5.705	3.246	STX16	ENSG00000124222.22	5' UTR
chr1	155,975,369	155,975,439	-	3.338	3.068	ARHGEF2	ENSG00000116584.22	Distal intron
chr16	1,855,627	1,855,781	-	3.294	3.888	ENSG00000289722\|MEIOB	ENSG00000289722.1\|\|ENSG00000162039.18	Distal intron
chr11	2,691,387	2,691,451	-	5.348	3.113	KCNQ1OT1	ENSG00000269821.1	ncRNA
chr3	128,500,001	128,500,059	+	4.122	3.219	GATA2-AS1	ENSG00000244300.3	ncRNA
chr7	157,152,179	157,152,313	+	3.146	3.075	UBE3C	ENSG00000009335.18	Distal intron
chr4	165,335,736	165,335,780	+	4.129	3.988	MSMO1	ENSG00000052802.13	Distal intron
chr2	54,980,044	54,980,136	-	5.088	3.178	RTN4	ENSG00000115310.19	Distal intron
chr1	16,326,952	16,327,032	-	3.294	3.712	FBXO42	ENSG00000037637.11	Distal intron
chr4	55,417,512	55,417,635	+	3.665	3.393	TMEM165	ENSG00000134851.13	Proximal intron
chr22	16,605,601	16,605,662	+	6.750	3.123	TPTEP1\|ENSG00000283633	ENSG00000100181.22\|\|ENSG00000283633.1	ncRNA
chr10	35,450,204	35,450,274	+	4.702	3.641	CCNY	ENSG00000108100.18	Distal intron
chr3	6,509,296	6,509,353	+	3.917	3.218	ENSG00000189229	ENSG00000189229.12	ncRNA
chr5	43,295,561	43,295,664	-	3.018	3.908	HMGCS1	ENSG00000112972.15	5' splice site
chr1	35,927,653	35,927,760	+	3.849	3.984	AGO1	ENSG00000092847.14	3' UTR
chr19	5,716,468	5,716,500	-	7.546	5.078	LONP1	ENSG00000196365.12	Distal intron
chr1	109,231,292	109,231,366	+	4.129	4.273	SARS1	ENSG00000031698.13	Proximal intron
chr3	196,049,557	196,049,646	-	6.597	3.067	TFRC	ENSG00000072274.14	3' UTR
chr21	34,877,191	34,877,288	-	3.294	3.996	RUNX1	ENSG00000159216.19	Distal intron
chr2	61,534,118	61,534,184	-	3.571	4.029	XPO1	ENSG00000082898.19	5' UTR
chr22	20,085,907	20,085,951	+	4.192	3.286	DGCR8	ENSG00000128191.16	5' UTR
chr19	1,883,906	1,883,994	-	3.571	3.877	ABHD17A	ENSG00000129968.17	Proximal intron
chr13	110,905,338	110,905,421	-	5.533	3.776	ANKRD10	ENSG00000088448.14	Distal intron
chr22	19,404,970	19,405,026	-	4.192	3.236	HIRA	ENSG00000100084.14	Distal intron
chr18	9,926,482	9,926,555	+	4.725	3.500	VAPA	ENSG00000101558.14	Distal intron
chr14_GL000194v1_random	81,947	82,002	-	4.973	4.494	nan	nan	Intergenic
chr3	196,059,375	196,059,464	-	4.308	3.289	TFRC	ENSG00000072274.14	3' splice site
chr6	31,628,393	31,628,463	+	4.993	3.477	PRRC2A	ENSG00000204469.13	Proximal intron
chr17	32,374,947	32,375,001	+	5.257	4.587	ZNF207	ENSG00000010244.19	3' UTR
chr1	246,063,480	246,063,572	-	3.665	3.088	SMYD3	ENSG00000185420.19	Distal intron
chr7	140,697,503	140,697,613	+	5.608	3.350	NDUFB2	ENSG00000090266.13	Proximal intron
chr1	35,182,744	35,182,831	-	4.067	3.459	SFPQ	ENSG00000116560.12	ncRNA
chr7	119,709,145	119,709,206	-	4.129	4.102	LINC02476	ENSG00000225546.6	ncRNA
chr5	146,499,215	146,499,269	+	3.146	3.022	TCERG1	ENSG00000113649.13	Distal intron
chr16	23,898,463	23,898,526	+	3.018	4.051	PRKCB	ENSG00000166501.14	Distal intron
chr6	27,128,794	27,128,895	-	4.457	3.383	H2BC11	ENSG00000124635.9	Distal intron
chr19	46,197,946	46,198,000	-	5.905	3.183	IGFL2-AS1	ENSG00000268621.6	ncRNA
chr5	21,483,118	21,483,176	+	3.665	3.160	GUSBP1	ENSG00000183666.19	ncRNA
chr13	91,352,141	91,352,206	+	3.146	3.141	MIR17HG	ENSG00000215417.13	ncRNA
chr21	14,498,066	14,498,132	-	4.725	3.723	SAMSN1	ENSG00000155307.19	Proximal intron
chr3	196,051,751	196,051,814	-	8.561	3.469	TFRC	ENSG00000072274.14	3' UTR
chr16	57,184,576	57,184,665	-	3.665	3.177	PSME3IP1	ENSG00000172775.17	Distal intron
chr22	21,768,265	21,768,342	-	4.192	3.404	MAPK1	ENSG00000100030.15	Distal intron
chr19	17,184,361	17,184,484	+	3.146	3.243	MYO9B	ENSG00000099331.14	Proximal intron
chr1	90,027,545	90,027,667	+	4.831	3.033	ZNF326	ENSG00000162664.17	CDS
chr2	61,530,894	61,530,986	-	3.720	3.964	XPO1	ENSG00000082898.19	Distal intron

The following tables contain identified motifs, where a motif is a short sequence of nucleotides that is significantly enriched in called peaks. Motifs were identified using HOMER's findMotifsGenome.pl tool. Motifs were called at multiple lengths, and results from all examined lengths are aggregated in the tables.

The following columns are included in the tables:

Motif: logo plot for the identified motif.
IUPAC: sequence of motif in IUPAC code.
Motif length: length of the called motif.
P-value: Significance of the called motif.
-log₁₀(p-value): log transformed significance, a larger number indicates a greater significance.
% Peaks: percent of examined peaks with the identified motif.
% Background: percent of non-peak background regions with the motif.

Please note, this table is interactive. You can search for specific sequences, and can sort the table by any of the columns. The search buttons at thr bottom of the tables allow for specific filtering by sequence or motif length.

ENCSR769UEW (HepG2) Motifs

No significant motif were identified

ENCSR154HRN (K562) Motifs

IUPAC sequence	Motif length	P-value	-log₁₀(p-value)	% Peaks	% Background
UAGUCAGU	8	1e-27	62.18	42.0	11.55
GUUAGGGAGC	10	1e-18	41.72	20.0	3.55
UAGUUUAGGCAG	12	1e-17	41.29	5.5	0.06
AGGUAGGGAGCU	12	1e-16	37.82	4.0	0.02
CAGUUUAG	8	1e-12	28.33	12.0	1.82