Variant report

Variant	rs3802963
Chromosome Location	chr11:16761109-16761110
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:58)
CpG islands
(count:0)
Chromatin interactive
region (count:7)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:58 , 50 per page) page: 1 2

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	MAZ	chr11:16759592-16761139	Hela-S3	cervix:	n/a	n/a
2	POLR2A	chr11:16759189-16762064	GM12878	blood:	n/a	n/a
3	POLR2A	chr11:16758923-16761234	GM12878	blood:	n/a	n/a
4	PML	chr11:16759333-16761145	GM12878	blood:	n/a	chr11:16760194-16760202
5	MAX	chr11:16759386-16761269	Hela-S3	cervix:	n/a	n/a
6	POLR2A	chr11:16759275-16761328	PBDE	blood:	n/a	n/a
7	POLR2A	chr11:16759390-16761304	GM12892	blood:	n/a	n/a
8	POLR2A	chr11:16759198-16761269	GM19193	blood:	n/a	n/a
9	POLR2A	chr11:16759138-16761405	GM12878	blood:	n/a	n/a
10	POLR2A	chr11:16759489-16761339	U87	brain:	n/a	n/a
11	POLR2A	chr11:16759508-16761432	HUVEC	blood vessel:	n/a	n/a
12	WRNIP1	chr11:16759449-16761494	GM12878	blood:	n/a	n/a
13	POLR2A	chr11:16759189-16761354	GM18505	blood:	n/a	n/a
14	CHD2	chr11:16759244-16761261	Hela-S3	cervix:	n/a	n/a
15	POLR2A	chr11:16759099-16762017	K562	blood:	n/a	n/a
16	POLR2A	chr11:16758966-16761509	SK-N-MC	brain:	n/a	n/a
17	POLR2A	chr11:16759113-16762148	GM12878	blood:	n/a	n/a
18	POLR2A	chr11:16759101-16761380	GM12892	blood:	n/a	n/a
19	HCFC1	chr11:16759016-16761619	Hela-S3	cervix:	n/a	n/a
20	CHD1	chr11:16759447-16761256	GM12878	blood:	n/a	n/a
21	RCOR1	chr11:16759541-16761111	Hela-S3	cervix:	n/a	n/a
22	SIN3A	chr11:16759207-16761356	H1-hESC	embryonic stem cell:	n/a	n/a
23	SREBP1	chr11:16759183-16761709	GM12878	blood:	n/a	n/a
24	RELA	chr11:16759394-16761189	GM12891	blood:	n/a	n/a
25	POLR2A	chr11:16760976-16761300	SK-N-SH	brain:	n/a	n/a
26	POLR2A	chr11:16759511-16761144	Hela-S3	cervix:	n/a	n/a
27	REST	chr11:16759087-16761652	H1-neurons	neurons:	n/a	chr11:16760921-16760941 chr11:16760921-16760941
28	RFX5	chr11:16759291-16761252	Hela-S3	cervix:	n/a	n/a
29	TBP	chr11:16759544-16761179	HepG2	liver:	n/a	n/a
30	POLR2A	chr11:16759151-16761223	Hela-S3	cervix:	n/a	n/a
31	ZNF263	chr11:16759178-16761181	HEK293-T-REx	kidney:	n/a	n/a
32	POLR2A	chr11:16759484-16761128	K562	blood:	n/a	n/a
33	MXI1	chr11:16759552-16761156	GM12878	blood:	n/a	n/a
34	POLR2A	chr11:16759435-16761243	H1-hESC	embryonic stem cell:	n/a	n/a
35	POLR2A	chr11:16759183-16762100	MCF10A-Er-Src	breast:	n/a	n/a
36	MAZ	chr11:16759414-16761224	IMR90	lung:	n/a	n/a
37	GTF2F1	chr11:16760927-16761149	H1-hESC	embryonic stem cell:	n/a	n/a
38	POLR2A	chr11:16761008-16761407	H1-neurons	neurons:	n/a	n/a
39	CHD2	chr11:16759448-16761229	GM12878	blood:	n/a	n/a
40	POLR2A	chr11:16759127-16762273	HepG2	liver:	n/a	n/a
41	POLR2A	chr11:16758929-16761360	H1-hESC	embryonic stem cell:	n/a	n/a
42	POLR2A	chr11:16759172-16761195	K562	blood:	n/a	n/a
43	BRCA1	chr11:16759150-16761517	Hela-S3	cervix:	n/a	n/a
44	POLR2A	chr11:16759398-16761194	Hela-S3	cervix:	n/a	n/a
45	HCFC1	chr11:16759593-16761145	K562	blood:	n/a	n/a
46	STAT3	chr11:16760732-16761164	MCF10A-Er-Src	breast:	n/a	chr11:16760810-16760818
47	POLR2A	chr11:16759176-16761144	Hela-S3	cervix:	n/a	n/a
48	POLR2A	chr11:16759236-16761301	HepG2	liver:	n/a	n/a
49	POLR2A	chr11:16759102-16761882	MCF10A-Er-Src	breast:	n/a	n/a
50	POLR2A	chr11:16759357-16762072	IMR90	lung:	n/a	n/a

No data

(count:7 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr11:16634578..16636953-chr11:16760027..16762559,3	K562	blood:
2	chr11:16759801..16761698-chr11:16777281..16779265,2	K562	blood:
3	chr11:16759049..16761712-chr11:16777478..16779237,2	MCF-7	breast:
4	chr11:16759176..16761906-chr11:17098692..17100616,2	MCF-7	breast:
5	chr11:16759714..16761562-chr11:17097936..17099803,2	K562	blood:
6	chr11:16760740..16762840-chr11:16767428..16769739,2	MCF-7	breast:
7	chr11:16759714..16762827-chr11:17097720..17101099,4	K562	blood:

(count:1 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-PLEKHA7-3	chr11:16761006-16761138	NONHSAT018177

No data

Variant related genes	Relation type
SOX6	TF binding region
C11orf58	TF binding region
ENSG00000110696	Chromatin interaction
ENSG00000110700	Chromatin interaction

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10734249	0.92[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10741708	0.93[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12794768	0.91[EUR][1000 genomes]
rs12799800	0.89[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs12799969	0.89[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs12804277	0.91[EUR][1000 genomes]
rs1501451	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1846936	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1967192	0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1995343	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2221243	0.89[EUR][1000 genomes]
rs34097789	0.89[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs34812104	0.87[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs3921675	0.92[EUR][1000 genomes]
rs4756860	0.85[EUR][1000 genomes]
rs4756862	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4757428	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4757431	0.81[EUR][1000 genomes]
rs4757432	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6486310	0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6486312	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs66670205	0.84[EUR][1000 genomes]
rs7110136	0.92[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7117140	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7125008	0.85[EUR][1000 genomes]
rs7125262	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.88[AFR][1000 genomes];0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7128484	0.93[EUR][1000 genomes]
rs7931915	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7939889	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7944906	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv553566	chr11:16329009-16799044	Strong transcription Weak transcription Enhancers Bivalent/Poised TSS ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
2	esv11207	chr11:16760318-16761128	Active TSS Transcr. at gene 5' and 3' Weak transcription Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:16759000-16761200	Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
2	chr11:16759000-16761200	Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
3	chr11:16759200-16761200	Active TSS	Cortex derived primary cultured neurospheres	brain
4	chr11:16759200-16761200	Active TSS	Brain Anterior Caudate	brain
5	chr11:16759200-16761200	Active TSS	Brain Hippocampus Middle	brain
6	chr11:16759200-16761200	Active TSS	Fetal Brain Female	brain
7	chr11:16759200-16761200	Active TSS	Fetal Lung	lung
8	chr11:16759200-16761200	Active TSS	NH-A	brain
9	chr11:16759200-16761400	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
10	chr11:16759200-16761400	Active TSS	iPS-18 Cell Line	embryonic stem cell
11	chr11:16759200-16761400	Active TSS	iPS-20b Cell Line	embryonic stem cell
12	chr11:16759200-16761400	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr11:16759200-16761400	Active TSS	Muscle Satellite Cultured Cells	--
14	chr11:16759200-16761400	Active TSS	Brain Inferior Temporal Lobe	brain
15	chr11:16759200-16761400	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
16	chr11:16759200-16761400	Active TSS	Duodenum Smooth Muscle	Duodenum
17	chr11:16759200-16761400	Active TSS	Pancreas	Pancrea
18	chr11:16759200-16761400	Active TSS	Rectal Mucosa Donor 29	rectum
19	chr11:16759200-16761400	Active TSS	Stomach Smooth Muscle	stomach
20	chr11:16759200-16761400	Active TSS	Hela-S3	cervix
21	chr11:16759200-16761400	Active TSS	NHEK	skin
22	chr11:16759200-16761600	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr11:16759200-16761600	Active TSS	iPS-15b Cell Line	embryonic stem cell
24	chr11:16759200-16761600	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
25	chr11:16759200-16761600	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
26	chr11:16759200-16761600	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
27	chr11:16759200-16761600	Active TSS	A549	lung
28	chr11:16759200-16761600	Active TSS	K562	blood
29	chr11:16759200-16761800	Active TSS	ES-I3 Cell Line	embryonic stem cell
30	chr11:16759200-16761800	Active TSS	H1 Cell Line	embryonic stem cell
31	chr11:16759200-16761800	Active TSS	HUES48 Cell Line	embryonic stem cell
32	chr11:16759200-16761800	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
33	chr11:16759200-16761800	Active TSS	Breast Myoepithelial Primary Cells	Breast
34	chr11:16759200-16761800	Active TSS	HSMMtube	muscle
35	chr11:16759200-16762000	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
36	chr11:16759200-16762000	Active TSS	Fetal Kidney	kidney
37	chr11:16759200-16762000	Active TSS	Right Ventricle	heart
38	chr11:16759200-16762200	Active TSS	H9 Cell Line	embryonic stem cell
39	chr11:16759200-16762200	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
40	chr11:16759200-16762200	Active TSS	HUES6 Cell Line	embryonic stem cell
41	chr11:16759200-16762200	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
42	chr11:16759200-16762800	Active TSS	HUES64 Cell Line	embryonic stem cell
43	chr11:16759200-16763200	Active TSS	Pancreatic Islets	Pancreatic Islet
44	chr11:16759400-16761200	Active TSS	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
45	chr11:16759400-16761200	Active TSS	Primary T helper cells PMA-I stimulated	--
46	chr11:16759400-16761200	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
47	chr11:16759400-16761200	Active TSS	Colonic Mucosa	Colon
48	chr11:16759400-16761200	Active TSS	Colon Smooth Muscle	Colon
49	chr11:16759400-16761200	Active TSS	Osteobl	bone
50	chr11:16759400-16761400	Active TSS	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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