Variant report

Variant	rs3802745
Chromosome Location	chr11:67066878-67066879
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:15)
CpG islands
(count:0)
Chromatin interactive
region (count:3)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:15 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr11:67066586-67067477	GM12892	blood:	n/a	n/a
2	POLR2A	chr11:67066652-67067130	GM12891	blood:	n/a	n/a
3	POLR2A	chr11:67066777-67067270	HepG2	liver:	n/a	n/a
4	POLR2A	chr11:67066828-67066896	Hela-S3	cervix:	n/a	n/a
5	POLR2A	chr11:67066711-67067263	GM12892	blood:	n/a	n/a
6	POLR2A	chr11:67066666-67067646	GM12878	blood:	n/a	n/a
7	POLR2A	chr11:67066339-67071400	HL-60	blood:	n/a	n/a
8	POLR2A	chr11:67066799-67067271	GM12878	blood:	n/a	n/a
9	POLR2A	chr11:67066539-67067724	GM12892	blood:	n/a	n/a
10	POLR2A	chr11:67066765-67067315	K562	blood:	n/a	n/a
11	POLR2A	chr11:67066214-67071965	HL-60	blood:	n/a	n/a
12	POLR2A	chr11:67066702-67066914	ECC-1	luminal epithelium:	n/a	n/a
13	POLR2A	chr11:67066798-67067153	GM12891	blood:	n/a	n/a
14	POLR2A	chr11:67066735-67071495	NB4	blood:	n/a	n/a
15	POLR2A	chr11:67066531-67067406	GM12878	blood:	n/a	n/a

No data

(count:3 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr11:67054455..67063331-chr11:67064649..67075279,24	K562	blood:
2	chr11:67041964..67046049-chr11:67065840..67069328,4	K562	blood:
3	chr11:67066845..67067640-chr14:91976478..91977300,2	NB4	blood:

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

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-SSH3-2	chr11:67065362-67067092	NONHSAT022390

No data

Variant related genes	Relation type
ANKRD13D	TF binding region
SSH3	TF binding region
ENSG00000172932	Chromatin interaction
ENSG00000100796	Chromatin interaction
ENSG00000173020	Chromatin interaction

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs11227764	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11227771	0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11227780	0.86[EUR][1000 genomes]
rs11826923	0.86[EUR][1000 genomes]
rs2004225	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs57238619	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs58530946	0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs60229295	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs61891566	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs61891569	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs61891571	0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs61891572	0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs61891574	0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs72932705	0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:13 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv531397	chr11:66653381-67465721	Active TSS Enhancers Strong transcription Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	271 gene(s)	inside rSNPs	diseases
2	nsv933183	chr11:67008447-67160993	Flanking Active TSS Weak transcription Enhancers Transcr. at gene 5' and 3' Strong transcription Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	88 gene(s)	inside rSNPs	diseases
3	nsv897796	chr11:67021518-67186000	Weak transcription Strong transcription Active TSS Flanking Active TSS Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	103 gene(s)	inside rSNPs	diseases
4	nsv897797	chr11:67023040-67293234	Flanking Active TSS Strong transcription Enhancers Active TSS Weak transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	206 gene(s)	inside rSNPs	diseases
5	nsv897799	chr11:67024534-67072623	Flanking Active TSS Bivalent Enhancer Enhancers Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
6	nsv897800	chr11:67024534-67086298	Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
7	nsv1043037	chr11:67027193-67357425	Enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Flanking Active TSS Strong transcription Genic enhancers Active TSS ZNF genes & repeats Weak transcription Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	213 gene(s)	inside rSNPs	diseases
8	nsv468603	chr11:67033076-67164495	Enhancers Weak transcription Genic enhancers Strong transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	85 gene(s)	inside rSNPs	diseases
9	nsv555253	chr11:67033076-67164495	Weak transcription Strong transcription Flanking Active TSS Genic enhancers Enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	85 gene(s)	inside rSNPs	diseases
10	nsv897801	chr11:67033076-67432479	Bivalent Enhancer Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	236 gene(s)	inside rSNPs	diseases
11	nsv897802	chr11:67051245-67075024	Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
12	nsv1047890	chr11:67058231-67184436	Flanking Active TSS Enhancers Strong transcription Genic enhancers Weak transcription Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	88 gene(s)	inside rSNPs	diseases
13	nsv1048230	chr11:67058231-67252397	Active TSS Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	146 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:67057600-67067000	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr11:67057600-67069200	Weak transcription	Psoas Muscle	Psoas
3	chr11:67058600-67069200	Weak transcription	Fetal Heart	heart
4	chr11:67059800-67067800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr11:67060000-67067000	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
6	chr11:67060000-67068000	Strong transcription	Fetal Muscle Trunk	muscle
7	chr11:67060000-67069400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr11:67060000-67069600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
9	chr11:67061200-67069000	Strong transcription	Osteobl	bone
10	chr11:67061200-67069800	Weak transcription	Small Intestine	intestine
11	chr11:67061400-67069000	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
12	chr11:67062000-67069000	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr11:67062200-67070400	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
14	chr11:67063200-67067800	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
15	chr11:67063600-67067000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
16	chr11:67063600-67067000	Strong transcription	HSMM	muscle
17	chr11:67063600-67069200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
18	chr11:67063600-67069200	Weak transcription	Fetal Brain Male	brain
19	chr11:67063600-67069400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
20	chr11:67063800-67068000	Strong transcription	Fetal Muscle Leg	muscle
21	chr11:67063800-67069400	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
22	chr11:67063800-67069800	Weak transcription	Pancreatic Islets	Pancreatic Islet
23	chr11:67063800-67070000	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
24	chr11:67063800-67070000	Weak transcription	Fetal Kidney	kidney
25	chr11:67063800-67070400	Strong transcription	Dnd41	blood
26	chr11:67064000-67068200	Strong transcription	Primary neutrophils fromperipheralblood	blood
27	chr11:67064000-67068600	Weak transcription	HUVEC	blood vessel
28	chr11:67064000-67068800	Weak transcription	Hela-S3	cervix
29	chr11:67064000-67069200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
30	chr11:67064000-67069200	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
31	chr11:67064000-67069200	Strong transcription	Fetal Intestine Large	intestine
32	chr11:67064200-67067800	Strong transcription	Primary T helper cells fromperipheralblood	blood
33	chr11:67064200-67069800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
34	chr11:67064400-67067200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
35	chr11:67064400-67068400	Strong transcription	HMEC	breast
36	chr11:67064400-67068800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
37	chr11:67064400-67069000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
38	chr11:67064400-67069000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
39	chr11:67064400-67069000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
40	chr11:67064400-67069000	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
41	chr11:67064400-67069200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr11:67064400-67069400	Strong transcription	Fetal Stomach	stomach
43	chr11:67064400-67069800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
44	chr11:67064400-67069800	Strong transcription	Fetal Thymus	thymus
45	chr11:67064400-67070400	Strong transcription	Primary B cells from peripheral blood	blood
46	chr11:67064600-67069400	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
47	chr11:67064600-67069800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
48	chr11:67064800-67069800	Weak transcription	NH-A	brain
49	chr11:67065200-67068200	Strong transcription	Placenta	Placenta
50	chr11:67065400-67069200	Strong transcription	HUES6 Cell Line	embryonic stem cell

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