Variant report

Variant	rs16878696
Chromosome Location	chr6:16634454-16634455
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:16592663..16595444-chr6:16633533..16635867,2	MCF-7	breast:
2	chr6:16632701..16636861-chr6:16759837..16763669,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000229931	Chromatin interaction
ENSG00000124788	Chromatin interaction

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs16878698	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs2237162	1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs2237163	0.83[ASN][1000 genomes]
rs2299069	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs6899788	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs6930762	0.82[CHB][hapmap];0.81[CHD][hapmap];1.00[JPT][hapmap]
rs723053	1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs729770	0.81[CHD][hapmap]
rs73725208	0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs73725209	0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs73725212	0.83[ASN][1000 genomes]
rs73725213	0.83[ASN][1000 genomes]
rs7758530	1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs9464935	1.00[JPT][hapmap]
rs9477205	1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532022	chr6:16448152-16825567	ZNF genes & repeats Weak transcription Genic enhancers Enhancers Flanking Active TSS Strong transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	nsv1031423	chr6:16467215-16823725	Active TSS Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
3	nsv1015992	chr6:16469059-16846847	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
4	nsv538148	chr6:16469059-16846847	Weak transcription Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:96 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:16584000-16670000	Weak transcription	Fetal Brain Male	brain
2	chr6:16585400-16644800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
3	chr6:16592600-16645000	Weak transcription	Adipose Nuclei	Adipose
4	chr6:16592800-16635200	Weak transcription	Aorta	Aorta
5	chr6:16602400-16636400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
6	chr6:16605200-16635000	Weak transcription	Liver	Liver
7	chr6:16606000-16653200	Weak transcription	Fetal Muscle Trunk	muscle
8	chr6:16609800-16639200	Weak transcription	Fetal Intestine Large	intestine
9	chr6:16619000-16636400	Weak transcription	Ovary	ovary
10	chr6:16622200-16651400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
11	chr6:16623800-16636000	Weak transcription	Rectal Smooth Muscle	rectum
12	chr6:16623800-16636200	Weak transcription	Sigmoid Colon	Sigmoid Colon
13	chr6:16624000-16636200	Weak transcription	Muscle Satellite Cultured Cells	--
14	chr6:16624000-16636400	Weak transcription	Hela-S3	cervix
15	chr6:16625400-16635000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr6:16625400-16635800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
17	chr6:16625800-16636200	Weak transcription	Rectal Mucosa Donor 29	rectum
18	chr6:16626000-16644200	Weak transcription	Stomach Smooth Muscle	stomach
19	chr6:16626200-16636200	Weak transcription	NHDF-Ad	bronchial
20	chr6:16626200-16636400	Weak transcription	Colon Smooth Muscle	Colon
21	chr6:16626200-16636400	Weak transcription	Psoas Muscle	Psoas
22	chr6:16626200-16654000	Weak transcription	Fetal Kidney	kidney
23	chr6:16626400-16635600	Weak transcription	NHLF	lung
24	chr6:16626400-16635800	Weak transcription	HSMMtube	muscle
25	chr6:16626400-16635800	Weak transcription	Osteobl	bone
26	chr6:16626400-16636000	Weak transcription	NH-A	brain
27	chr6:16627400-16636200	Weak transcription	Primary monocytes fromperipheralblood	blood
28	chr6:16627400-16641200	Weak transcription	Duodenum Smooth Muscle	Duodenum
29	chr6:16627600-16636200	Weak transcription	Skeletal Muscle Female	skeletal muscle
30	chr6:16627600-16636400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
31	chr6:16627800-16652000	Weak transcription	Thymus	Thymus
32	chr6:16628200-16635600	Weak transcription	Spleen	Spleen
33	chr6:16629000-16653400	Weak transcription	Rectal Mucosa Donor 31	rectum
34	chr6:16629200-16644400	Weak transcription	Duodenum Mucosa	Duodenum
35	chr6:16629600-16636000	Weak transcription	Esophagus	oesophagus
36	chr6:16629800-16641200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
37	chr6:16630600-16636200	Weak transcription	Monocytes-CD14+_RO01746	blood
38	chr6:16630800-16636000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
39	chr6:16630800-16644800	Weak transcription	Lung	lung
40	chr6:16631000-16635200	Weak transcription	Fetal Lung	lung
41	chr6:16631000-16638200	Weak transcription	Primary neutrophils fromperipheralblood	blood
42	chr6:16631000-16641000	Weak transcription	Primary hematopoietic stem cells	blood
43	chr6:16631400-16636200	Weak transcription	NHEK	skin
44	chr6:16631600-16636200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
45	chr6:16631600-16641400	Weak transcription	Fetal Brain Female	brain
46	chr6:16632000-16652000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
47	chr6:16632400-16635200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
48	chr6:16632400-16635800	Weak transcription	HUES64 Cell Line	embryonic stem cell
49	chr6:16632600-16635600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
50	chr6:16632600-16635800	Weak transcription	HUES6 Cell Line	embryonic stem cell

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