Variant report

Variant	rs11078410
Chromosome Location	chr17:17990634-17990635
allele	C/T
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	POLR2A	chr17:17990547-17991797	HepG2	liver:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr17:17955965..17957488-chr17:17989988..17991727,2	MCF-7	breast:
2	chr17:17989884..17994353-chr17:18008301..18011863,4	MCF-7	breast:
3	chr17:17984941..17987120-chr17:17988485..17990982,3	MCF-7	breast:

Variant related genes	Relation type
DRG2	TF binding region
ENSG00000108591	Chromatin interaction
ENSG00000141034	Chromatin interaction

Extended variants
information (count: 69 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs1008135	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1101727	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11650021	0.80[EUR][1000 genomes]
rs11867241	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2056842	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2955350	0.81[EUR][1000 genomes]
rs2955353	0.81[EUR][1000 genomes]
rs2955354	0.81[EUR][1000 genomes]
rs2955355	0.82[EUR][1000 genomes]
rs2955356	0.82[EUR][1000 genomes]
rs2955357	0.82[EUR][1000 genomes]
rs2955358	0.82[EUR][1000 genomes]
rs2955359	0.81[EUR][1000 genomes]
rs2955365	0.93[EUR][1000 genomes]
rs2955366	0.93[EUR][1000 genomes]
rs2955367	0.83[EUR][1000 genomes]
rs2955368	0.83[EUR][1000 genomes]
rs2955370	0.81[EUR][1000 genomes]
rs2955372	0.82[EUR][1000 genomes]
rs2955380	0.81[EUR][1000 genomes]
rs2955383	0.80[EUR][1000 genomes]
rs2974998	0.93[EUR][1000 genomes]
rs2974999	0.92[EUR][1000 genomes]
rs4365346	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4410135	0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4426402	0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4506967	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4561528	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4643387	0.83[EUR][1000 genomes]
rs4925135	0.81[EUR][1000 genomes]
rs4925136	0.81[EUR][1000 genomes]
rs59518074	0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62073573	0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6502636	0.91[EUR][1000 genomes]
rs6502637	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6826	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs712267	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs712268	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7207461	0.81[EUR][1000 genomes]
rs7210400	0.82[EUR][1000 genomes]
rs7211714	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7212447	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs721669	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7406744	0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs741782	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs8066764	0.91[EUR][1000 genomes]
rs8080602	0.81[EUR][1000 genomes]
rs854763	0.92[EUR][1000 genomes]
rs854767	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs854768	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs854769	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs854770	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs854789	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs854790	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs854791	0.91[EUR][1000 genomes]
rs854808	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs854809	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs854814	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs854817	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs854818	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9303144	0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9894138	0.82[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv531183	chr17:17571035-18205309	Genic enhancers Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	123 gene(s)	inside rSNPs	diseases
2	nsv916653	chr17:17651916-18454952	Enhancers Strong transcription Active TSS Genic enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	144 gene(s)	inside rSNPs	diseases
3	nsv533142	chr17:17691726-18236686	Active TSS Flanking Active TSS Enhancers Strong transcription Weak transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	116 gene(s)	inside rSNPs	diseases
4	nsv960429	chr17:17951047-18027679	Strong transcription Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
5	nsv482491	chr17:17959577-18153920	Enhancers Genic enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
6	nsv1061162	chr17:17978838-18259234	Flanking Active TSS Weak transcription Genic enhancers Active TSS Enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
7	nsv492305	chr17:17980441-18424702	Flanking Active TSS Enhancers Strong transcription Transcr. at gene 5' and 3' Weak transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	68 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:69 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:17987400-17990800	Weak transcription	HepG2	liver
2	chr17:17990400-17990800	Enhancers	Primary B cells from cord blood	blood
3	chr17:17990400-17990800	Enhancers	Primary B cells from peripheral blood	blood
4	chr17:17990400-17990800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
5	chr17:17990400-17990800	Enhancers	Primary T helper naive cells from peripheral blood	blood
6	chr17:17990400-17990800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
7	chr17:17990400-17991600	Active TSS	Primary T cells from cord blood	blood
8	chr17:17990600-17990800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
9	chr17:17990600-17990800	Enhancers	Primary neutrophils fromperipheralblood	blood
10	chr17:17990600-17990800	Flanking Active TSS	Primary T cells fromperipheralblood	blood
11	chr17:17990600-17990800	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
12	chr17:17990600-17990800	Active TSS	Primary T regulatory cells fromperipheralblood	blood
13	chr17:17990600-17990800	Flanking Active TSS	Primary Natural Killer cells fromperipheralblood	blood
14	chr17:17990600-17990800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
15	chr17:17990600-17990800	Flanking Active TSS	Primary T killer memory cells from peripheral blood	blood
16	chr17:17990600-17990800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
17	chr17:17990600-17990800	Flanking Active TSS	Muscle Satellite Cultured Cells	--
18	chr17:17990600-17990800	Active TSS	Primary mononuclear cells fromperipheralblood	Blood
19	chr17:17990600-17990800	Flanking Active TSS	Duodenum Mucosa	Duodenum
20	chr17:17990600-17990800	Enhancers	Fetal Intestine Small	intestine
21	chr17:17990600-17990800	Flanking Active TSS	Fetal Muscle Leg	muscle
22	chr17:17990600-17990800	Enhancers	Placenta	Placenta
23	chr17:17990600-17990800	Enhancers	Rectal Mucosa Donor 29	rectum
24	chr17:17990600-17990800	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
25	chr17:17990600-17990800	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
26	chr17:17990600-17990800	Flanking Active TSS	Thymus	Thymus
27	chr17:17990600-17991000	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
28	chr17:17990600-17991000	Flanking Active TSS	Breast Myoepithelial Primary Cells	Breast
29	chr17:17990600-17991000	Active TSS	Primary T helper 17 cells PMA-I stimulated	--
30	chr17:17990600-17991000	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
31	chr17:17990600-17991000	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
32	chr17:17990600-17991000	Flanking Active TSS	Adipose Nuclei	Adipose
33	chr17:17990600-17991000	Flanking Active TSS	Fetal Thymus	thymus
34	chr17:17990600-17991000	Flanking Active TSS	Stomach Smooth Muscle	stomach
35	chr17:17990600-17991200	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
36	chr17:17990600-17991400	Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
37	chr17:17990600-17991400	Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
38	chr17:17990600-17991400	Active TSS	Primary monocytes fromperipheralblood	blood
39	chr17:17990600-17991400	Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
40	chr17:17990600-17991400	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
41	chr17:17990600-17991400	Active TSS	Brain Germinal Matrix	brain
42	chr17:17990600-17991400	Active TSS	Fetal Adrenal Gland	Adrenal Gland
43	chr17:17990600-17991400	Enhancers	Fetal Brain Male	brain
44	chr17:17990600-17991400	Active TSS	Fetal Brain Female	brain
45	chr17:17990600-17991400	Active TSS	Rectal Smooth Muscle	rectum
46	chr17:17990600-17991400	Active TSS	Dnd41	blood
47	chr17:17990600-17991400	Active TSS	Monocytes-CD14+_RO01746	blood
48	chr17:17990600-17991600	Active TSS	Primary T helper cells PMA-I stimulated	--
49	chr17:17990600-17991600	Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
50	chr17:17990600-17991600	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin

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