Variant report

Variant	rs16934145
Chromosome Location	chr11:17461020-17461021
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	RCOR1	chr11:17461010-17461393	HepG2	liver:	n/a	n/a
2	FOSL2	chr11:17460876-17461332	A549	lung:	n/a	chr11:17461156-17461168
3	KAP1	chr11:17460362-17461490	HEK293	kidney:	n/a	n/a
4	FOSL2	chr11:17460974-17461274	A549	lung:	n/a	chr11:17461156-17461168
5	NR3C1	chr11:17460859-17461333	A549	lung:	n/a	n/a
6	FOXA1	chr11:17460913-17461424	HepG2	liver:	n/a	n/a
7	MAX	chr11:17460821-17461538	A549	lung:	n/a	chr11:17461145-17461155
8	FOXA2	chr11:17460751-17461741	HepG2	liver:	n/a	n/a
9	HDAC2	chr11:17460965-17461422	MCF-7	breast:	n/a	chr11:17461220-17461228 chr11:17461169-17461183 chr11:17461207-17461216
10	NR2F2	chr11:17460775-17461439	MCF-7	breast:	n/a	n/a
11	HDAC2	chr11:17460859-17461496	MCF-7	breast:	n/a	chr11:17461220-17461228 chr11:17461169-17461183 chr11:17461207-17461216
12	BCL3	chr11:17460846-17461380	A549	lung:	n/a	chr11:17461263-17461272
13	CTCF	chr11:17460920-17461070	GM12872	blood:	n/a	n/a
14	ZNF217	chr11:17460983-17461337	MCF-7	breast:	n/a	n/a
15	NR3C1	chr11:17460899-17461309	A549	lung:	n/a	n/a
16	FOXA1	chr11:17460859-17461484	HepG2	liver:	n/a	n/a
17	SP1	chr11:17460869-17461488	A549	lung:	n/a	chr11:17461367-17461374 chr11:17461146-17461159
18	FOXA2	chr11:17460938-17461391	HepG2	liver:	n/a	n/a
19	CREB1	chr11:17460951-17461265	A549	lung:	n/a	n/a
20	EP300	chr11:17460947-17461370	HepG2	liver:	n/a	chr11:17461193-17461203 chr11:17461206-17461216
21	FOSL2	chr11:17460917-17461293	HepG2	liver:	n/a	chr11:17461156-17461168
22	TCF12	chr11:17460798-17461640	A549	lung:	n/a	chr11:17461207-17461216
23	REST	chr11:17461013-17461307	HepG2	liver:	n/a	chr11:17461145-17461158
24	FOXA1	chr11:17460917-17461497	HepG2	liver:	n/a	n/a
25	FOXA2	chr11:17460781-17461554	A549	lung:	n/a	n/a
26	MAZ	chr11:17461005-17461357	HepG2	liver:	n/a	chr11:17461145-17461155
27	KAP1	chr11:17460714-17461386	U2OS	brain:	n/a	n/a
28	FOSL2	chr11:17460924-17461405	HepG2	liver:	n/a	chr11:17461156-17461168
29	FOXA1	chr11:17460838-17461519	HepG2	liver:	n/a	n/a
30	HDAC2	chr11:17460912-17461381	HepG2	liver:	n/a	chr11:17461220-17461228 chr11:17461169-17461183 chr11:17461207-17461216
31	SP1	chr11:17460887-17461376	HepG2	liver:	n/a	chr11:17461367-17461374 chr11:17461146-17461159
32	NR3C1	chr11:17460856-17461446	A549	lung:	n/a	n/a
33	SP1	chr11:17460883-17461466	A549	lung:	n/a	chr11:17461367-17461374 chr11:17461146-17461159
34	EP300	chr11:17460934-17461341	HepG2	liver:	n/a	chr11:17461193-17461203 chr11:17461206-17461216
35	HDAC2	chr11:17460928-17461362	HepG2	liver:	n/a	chr11:17461220-17461228 chr11:17461169-17461183 chr11:17461207-17461216
36	BCL3	chr11:17460964-17461456	A549	lung:	n/a	chr11:17461263-17461272
37	MBD4	chr11:17460920-17461377	HepG2	liver:	n/a	n/a
38	TCF7L2	chr11:17460937-17461373	HEK293	kidney:	n/a	n/a
39	MYBL2	chr11:17460884-17461463	HepG2	liver:	n/a	n/a
40	CTCF	chr11:17460940-17461090	HepG2	liver:	n/a	n/a
41	FOXA2	chr11:17460937-17461541	A549	lung:	n/a	n/a
42	CTCF	chr11:17460900-17461050	Caco-2	colon:	n/a	n/a
43	RXRA	chr11:17460968-17461365	HepG2	liver:	n/a	chr11:17461250-17461264
44	USF1	chr11:17461014-17461484	A549	lung:	n/a	n/a
45	NR3C1	chr11:17460883-17461369	A549	lung:	n/a	n/a
46	GATA3	chr11:17460796-17461450	MCF-7	breast:	n/a	chr11:17460929-17460939
47	MAX	chr11:17460864-17461392	MCF-7	breast:	n/a	chr11:17461145-17461155
48	GATA3	chr11:17460876-17461502	A549	lung:	n/a	chr11:17460929-17460939
49	SIN3AK20	chr11:17460782-17461574	MCF-7	breast:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:17459219..17462653-chr11:17463041..17467220,4	K562	blood:

Variant related genes	Relation type
SDHCP4	TF binding region
ENSG00000006071	Chromatin interaction

Extended variants
information (count: 10 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs11822987	0.83[YRI][hapmap]
rs11827593	0.83[YRI][hapmap]
rs12422005	1.00[YRI][hapmap];0.84[AFR][1000 genomes]
rs56058349	0.84[AFR][1000 genomes]
rs57156558	1.00[AMR][1000 genomes]
rs58016260	1.00[AMR][1000 genomes]
rs59834368	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60298839	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60337653	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv469895	chr11:17368270-17584220	Weak transcription Bivalent Enhancer Genic enhancers Enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:40 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:17443800-17462600	Weak transcription	Brain Substantia Nigra	brain
2	chr11:17454000-17464000	Weak transcription	Brain Anterior Caudate	brain
3	chr11:17454200-17465800	Weak transcription	Brain Angular Gyrus	brain
4	chr11:17456000-17469200	Weak transcription	Brain Inferior Temporal Lobe	brain
5	chr11:17457000-17467200	Weak transcription	Fetal Brain Male	brain
6	chr11:17457200-17465400	Weak transcription	Cortex derived primary cultured neurospheres	brain
7	chr11:17457400-17464600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr11:17458800-17462000	Enhancers	Fetal Thymus	thymus
9	chr11:17460000-17461400	Enhancers	Dnd41	blood
10	chr11:17460000-17461600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
11	chr11:17460200-17461200	Enhancers	Gastric	stomach
12	chr11:17460200-17462400	Strong transcription	Fetal Brain Female	brain
13	chr11:17460400-17461200	Bivalent Enhancer	iPS DF 6.9 Cell Line	embryonic stem cell
14	chr11:17460400-17461400	Enhancers	Fetal Intestine Large	intestine
15	chr11:17460400-17461600	Enhancers	Fetal Lung	lung
16	chr11:17460400-17462200	Enhancers	A549	lung
17	chr11:17460600-17461200	Enhancers	Primary hematopoietic stem cells short term culture	blood
18	chr11:17460600-17461400	Enhancers	Stomach Mucosa	stomach
19	chr11:17460600-17461600	Enhancers	Fetal Intestine Small	intestine
20	chr11:17460800-17461200	Bivalent Enhancer	H1 Cell Line	embryonic stem cell
21	chr11:17460800-17461200	Bivalent Enhancer	iPS-20b Cell Line	embryonic stem cell
22	chr11:17460800-17461200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
23	chr11:17460800-17461400	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
24	chr11:17460800-17461400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
25	chr11:17460800-17461400	Enhancers	Primary hematopoietic stem cells	blood
26	chr11:17460800-17461400	Enhancers	Pancreas	Pancrea
27	chr11:17460800-17461400	Bivalent Enhancer	HepG2	liver
28	chr11:17460800-17461800	Bivalent Enhancer	HUES6 Cell Line	embryonic stem cell
29	chr11:17460800-17461800	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
30	chr11:17460800-17462000	Weak transcription	Pancreatic Islets	Pancreatic Islet
31	chr11:17460800-17474000	Weak transcription	Brain Cingulate Gyrus	brain
32	chr11:17461000-17461200	Bivalent Enhancer	ES-I3 Cell Line	embryonic stem cell
33	chr11:17461000-17461200	Bivalent Enhancer	ES-WA7 Cell Line	embryonic stem cell
34	chr11:17461000-17461200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
35	chr11:17461000-17461200	Flanking Bivalent TSS/Enh	HUES48 Cell Line	embryonic stem cell
36	chr11:17461000-17461200	Flanking Bivalent TSS/Enh	iPS-15b Cell Line	embryonic stem cell
37	chr11:17461000-17461200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
38	chr11:17461000-17461200	Bivalent Enhancer	Stomach Smooth Muscle	stomach
39	chr11:17461000-17461200	Enhancers	Spleen	Spleen
40	chr11:17461000-17461600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell

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