Variant report

Variant	rs16889039
Chromosome Location	chr6:36722789-36722790
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:9)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:9 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:36565352..36567022-chr6:36722570..36724829,2	MCF-7	breast:
2	chr6:36722398..36723937-chr6:37026660..37028558,2	MCF-7	breast:
3	chr6:36710588..36713306-chr6:36722738..36724865,2	MCF-7	breast:
4	chr6:36645102..36656546-chr6:36717974..36730993,29	MCF-7	breast:
5	chr6:36574880..36577786-chr6:36720826..36723151,2	K562	blood:
6	chr6:36644838..36653438-chr6:36718524..36730954,23	MCF-7	breast:
7	chr6:36572562..36574759-chr6:36721579..36723537,2	K562	blood:
8	chr6:36575546..36577786-chr6:36721228..36723151,2	K562	blood:
9	chr6:36560659..36563311-chr6:36721954..36723559,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000124762	Chromatin interaction
ENSG00000112081	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs3213534	0.86[JPT][hapmap];0.83[ASN][1000 genomes]
rs3213535	0.86[JPT][hapmap];0.86[ASN][1000 genomes]
rs9380601	1.00[EUR][1000 genomes]
rs9470387	0.86[JPT][hapmap];0.86[ASN][1000 genomes]
rs9986517	0.86[JPT][hapmap];0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1023171	chr6:36686935-36880899	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Genic enhancers 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 target site	27 gene(s)	inside rSNPs	diseases
2	nsv538202	chr6:36686935-36880899	Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
3	nsv1033261	chr6:36687424-36837315	Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
4	nsv524053	chr6:36695223-36747406	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	11 gene(s)	inside rSNPs	diseases
5	nsv885814	chr6:36704807-36722842	Enhancers Bivalent Enhancer Weak transcription Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:71 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:36709200-36727000	Strong transcription	Cortex derived primary cultured neurospheres	brain
2	chr6:36718400-36723400	Enhancers	Duodenum Mucosa	Duodenum
3	chr6:36718400-36723400	Enhancers	NHEK	skin
4	chr6:36718600-36723200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
5	chr6:36718600-36724200	Enhancers	Rectal Mucosa Donor 31	rectum
6	chr6:36718600-36725400	Weak transcription	Brain Inferior Temporal Lobe	brain
7	chr6:36718600-36725800	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
8	chr6:36718600-36726600	Weak transcription	Brain Cingulate Gyrus	brain
9	chr6:36718800-36723400	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
10	chr6:36718800-36726800	Weak transcription	Brain Hippocampus Middle	brain
11	chr6:36718800-36727400	Enhancers	Primary monocytes fromperipheralblood	blood
12	chr6:36718800-36727400	Enhancers	Primary T cells fromperipheralblood	blood
13	chr6:36719400-36724000	Enhancers	Colonic Mucosa	Colon
14	chr6:36719600-36723000	Enhancers	Fetal Muscle Leg	muscle
15	chr6:36719600-36724000	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
16	chr6:36719600-36724800	Enhancers	Esophagus	oesophagus
17	chr6:36719600-36725800	Enhancers	HUVEC	blood vessel
18	chr6:36719600-36727000	Enhancers	Sigmoid Colon	Sigmoid Colon
19	chr6:36719800-36723000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
20	chr6:36719800-36723000	Enhancers	Primary T helper cells PMA-I stimulated	--
21	chr6:36719800-36723000	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
22	chr6:36719800-36724800	Enhancers	Skeletal Muscle Female	skeletal muscle
23	chr6:36719800-36725600	Enhancers	Spleen	Spleen
24	chr6:36719800-36726000	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
25	chr6:36720000-36723200	Enhancers	Primary T regulatory cells fromperipheralblood	blood
26	chr6:36720000-36724000	Enhancers	Primary T helper cells fromperipheralblood	blood
27	chr6:36720000-36726200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
28	chr6:36720200-36726400	Weak transcription	Pancreas	Pancrea
29	chr6:36720600-36723400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
30	chr6:36720600-36723800	Weak transcription	Lung	lung
31	chr6:36720600-36725600	Flanking Active TSS	GM12878-XiMat	blood
32	chr6:36720600-36726400	Weak transcription	HMEC	breast
33	chr6:36721000-36722800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
34	chr6:36721000-36723400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
35	chr6:36721000-36724400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
36	chr6:36721200-36723400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
37	chr6:36721200-36723600	Weak transcription	Muscle Satellite Cultured Cells	--
38	chr6:36721200-36725400	Enhancers	Skeletal Muscle Male	skeletal muscle
39	chr6:36721200-36726600	Weak transcription	Brain Anterior Caudate	brain
40	chr6:36721200-36726600	Weak transcription	Fetal Heart	heart
41	chr6:36721200-36726600	Weak transcription	HSMMtube	muscle
42	chr6:36721400-36723400	Weak transcription	Adipose Nuclei	Adipose
43	chr6:36721400-36723400	Weak transcription	Rectal Smooth Muscle	rectum
44	chr6:36721400-36723400	Weak transcription	Right Atrium	heart
45	chr6:36721400-36726400	Weak transcription	Fetal Intestine Large	intestine
46	chr6:36721400-36726600	Weak transcription	Fetal Intestine Small	intestine
47	chr6:36721400-36728600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
48	chr6:36721600-36722800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
49	chr6:36721600-36723800	Weak transcription	Small Intestine	intestine
50	chr6:36721800-36722800	Weak transcription	Stomach Mucosa	stomach

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