Variant report

Variant	rs6459484
Chromosome Location	chr6:16731200-16731201
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:16726082..16728628-chr6:16730139..16731648,2	K562	blood:
2	chr6:16728199..16732841-chr6:16759109..16762967,4	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]
rs10434861	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10456788	1.00[CEU][hapmap];0.90[TSI][hapmap];0.86[EUR][1000 genomes]
rs10456789	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs10456790	1.00[CEU][hapmap];0.90[TSI][hapmap];0.86[EUR][1000 genomes]
rs10456791	0.86[EUR][1000 genomes]
rs10949379	0.86[EUR][1000 genomes]
rs12194640	0.86[CEU][hapmap]
rs16878970	1.00[CEU][hapmap];0.90[TSI][hapmap];0.88[EUR][1000 genomes]
rs16879003	1.00[CEU][hapmap];0.90[TSI][hapmap];0.88[EUR][1000 genomes]
rs3806144	1.00[CEU][hapmap];0.94[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.95[EUR][1000 genomes]
rs3812217	0.85[CHD][hapmap];0.93[JPT][hapmap]
rs6915772	0.88[CHB][hapmap];0.90[JPT][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6935615	0.90[AFR][1000 genomes]
rs9350015	1.00[CEU][hapmap];0.92[CHB][hapmap];0.89[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs9358103	0.89[CHD][hapmap];0.93[JPT][hapmap]

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:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:16706400-16742600	Weak transcription	Pancreas	Pancrea
2	chr6:16713200-16731400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
3	chr6:16713800-16731200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
4	chr6:16713800-16747800	Weak transcription	Brain Germinal Matrix	brain
5	chr6:16719000-16731400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
6	chr6:16719200-16736800	Weak transcription	Fetal Brain Female	brain
7	chr6:16720200-16747800	Weak transcription	Fetal Brain Male	brain
8	chr6:16721400-16731200	Weak transcription	Placenta Amnion	Placenta Amnion
9	chr6:16721800-16732800	Enhancers	Fetal Intestine Large	intestine
10	chr6:16722600-16736800	Weak transcription	Right Ventricle	heart
11	chr6:16722600-16739600	Weak transcription	Fetal Muscle Trunk	muscle
12	chr6:16723800-16732400	Enhancers	Primary monocytes fromperipheralblood	blood
13	chr6:16724200-16732600	Enhancers	Stomach Mucosa	stomach
14	chr6:16724800-16731400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
15	chr6:16724800-16739800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
16	chr6:16725200-16731200	Weak transcription	Primary T cells from cord blood	blood
17	chr6:16725600-16736800	Weak transcription	Aorta	Aorta
18	chr6:16726200-16739800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
19	chr6:16726400-16731200	Weak transcription	Brain Anterior Caudate	brain
20	chr6:16726600-16739600	Weak transcription	Ovary	ovary
21	chr6:16727000-16731200	Weak transcription	Psoas Muscle	Psoas
22	chr6:16727200-16731400	Weak transcription	Brain Inferior Temporal Lobe	brain
23	chr6:16727200-16731800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
24	chr6:16727200-16737000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
25	chr6:16727400-16737000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
26	chr6:16727600-16731400	Weak transcription	Hela-S3	cervix
27	chr6:16727600-16736200	Weak transcription	NHEK	skin
28	chr6:16727800-16731400	Weak transcription	NHLF	lung
29	chr6:16727800-16731800	Weak transcription	Muscle Satellite Cultured Cells	--
30	chr6:16728200-16731600	Genic enhancers	Breast Myoepithelial Primary Cells	Breast
31	chr6:16728400-16731200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
32	chr6:16728400-16731400	Weak transcription	Brain Cingulate Gyrus	brain
33	chr6:16728600-16731200	Strong transcription	Fetal Muscle Leg	muscle
34	chr6:16728600-16731400	Weak transcription	Colonic Mucosa	Colon
35	chr6:16728600-16736600	Weak transcription	Adipose Nuclei	Adipose
36	chr6:16728800-16731400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
37	chr6:16728800-16733400	Weak transcription	Fetal Stomach	stomach
38	chr6:16728800-16733600	Enhancers	Primary T helper cells PMA-I stimulated	--
39	chr6:16728800-16737000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
40	chr6:16728800-16737000	Weak transcription	Left Ventricle	heart
41	chr6:16728800-16741000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
42	chr6:16728800-16744400	Weak transcription	Lung	lung
43	chr6:16729000-16731200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
44	chr6:16729200-16732000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
45	chr6:16729200-16732600	Enhancers	Fetal Intestine Small	intestine
46	chr6:16729200-16742600	Weak transcription	Gastric	stomach
47	chr6:16729400-16731200	Weak transcription	Primary hematopoietic stem cells	blood
48	chr6:16729400-16731200	Weak transcription	Rectal Smooth Muscle	rectum
49	chr6:16729600-16732800	Enhancers	Primary T helper naive cells from peripheral blood	blood
50	chr6:16729600-16733600	Enhancers	Primary T helper cells fromperipheralblood	blood

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