Variant report

Variant	rs6928607
Chromosome Location	chr6:146211833-146211834
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:146204410..146206507-chr6:146211730..146213654,2	MCF-7	breast:
2	chr6:146133506..146135427-chr6:146211550..146213483,2	K562	blood:
3	chr6:146134558..146137380-chr6:146209564..146213180,4	MCF-7	breast:
4	chr6:146209846..146213898-chr6:146246538..146250051,3	K562	blood:
5	chr6:146208202..146210645-chr6:146210859..146213066,4	K562	blood:

Variant related genes	Relation type
ENSG00000235652	Chromatin interaction
ENSG00000118496	Chromatin interaction
ENSG00000146414	Chromatin interaction

Extended variants
information (count: 78 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:76)

rs_ID	r²[population]
rs12332892	1.00[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28738876	1.00[EUR][1000 genomes]
rs55671343	1.00[EUR][1000 genomes]
rs55879513	1.00[EUR][1000 genomes]
rs56954340	1.00[EUR][1000 genomes]
rs57057101	1.00[EUR][1000 genomes]
rs57776904	1.00[EUR][1000 genomes]
rs57889864	1.00[EUR][1000 genomes]
rs58290238	1.00[EUR][1000 genomes]
rs58702332	1.00[EUR][1000 genomes]
rs59951042	1.00[EUR][1000 genomes]
rs60430705	1.00[EUR][1000 genomes]
rs60698481	1.00[EUR][1000 genomes]
rs60885622	1.00[EUR][1000 genomes]
rs60899243	1.00[EUR][1000 genomes]
rs6570721	0.85[ASW][hapmap]
rs6570725	1.00[EUR][1000 genomes]
rs6570727	1.00[EUR][1000 genomes]
rs6570730	1.00[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6900565	1.00[EUR][1000 genomes]
rs6900607	1.00[ASW][hapmap];0.94[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6904612	1.00[EUR][1000 genomes]
rs6918314	1.00[EUR][1000 genomes]
rs6920565	1.00[EUR][1000 genomes]
rs6924714	1.00[EUR][1000 genomes]
rs6935019	1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6936647	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6936879	1.00[EUR][1000 genomes]
rs6938895	1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs6940256	1.00[EUR][1000 genomes]
rs73566143	1.00[EUR][1000 genomes]
rs73570006	1.00[EUR][1000 genomes]
rs73570010	1.00[EUR][1000 genomes]
rs73570033	1.00[EUR][1000 genomes]
rs73570037	1.00[EUR][1000 genomes]
rs73570042	1.00[EUR][1000 genomes]
rs73572161	1.00[EUR][1000 genomes]
rs73572189	1.00[EUR][1000 genomes]
rs73574105	1.00[EUR][1000 genomes]
rs73576133	1.00[EUR][1000 genomes]
rs73576161	1.00[EUR][1000 genomes]
rs73576173	1.00[EUR][1000 genomes]
rs73576180	1.00[EUR][1000 genomes]
rs73576928	1.00[EUR][1000 genomes]
rs73578805	1.00[EUR][1000 genomes]
rs73578807	1.00[EUR][1000 genomes]
rs73578811	1.00[EUR][1000 genomes]
rs73578812	1.00[EUR][1000 genomes]
rs73578814	1.00[EUR][1000 genomes]
rs73578823	1.00[EUR][1000 genomes]
rs73578827	1.00[EUR][1000 genomes]
rs73578832	1.00[EUR][1000 genomes]
rs73578833	1.00[EUR][1000 genomes]
rs73580158	1.00[EUR][1000 genomes]
rs73580169	1.00[EUR][1000 genomes]
rs73580174	1.00[EUR][1000 genomes]
rs73580180	1.00[EUR][1000 genomes]
rs73580202	1.00[EUR][1000 genomes]
rs73582109	1.00[EUR][1000 genomes]
rs73582112	1.00[EUR][1000 genomes]
rs73582116	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73582125	1.00[EUR][1000 genomes]
rs73582139	1.00[EUR][1000 genomes]
rs73582149	1.00[EUR][1000 genomes]
rs73582176	1.00[EUR][1000 genomes]
rs73582189	1.00[EUR][1000 genomes]
rs73584226	1.00[EUR][1000 genomes]
rs7739858	1.00[EUR][1000 genomes]
rs7740567	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7757974	1.00[EUR][1000 genomes]
rs7762880	1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs9322040	1.00[EUR][1000 genomes]
rs9497422	1.00[EUR][1000 genomes]
rs9497423	1.00[EUR][1000 genomes]
rs9497430	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9497449	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1034226	chr6:146071068-146306942	Weak transcription Enhancers Active TSS ZNF genes & repeats Genic enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	nsv830835	chr6:146145148-146287473	Strong transcription Flanking Active TSS Enhancers ZNF genes & repeats Weak transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:121 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:146185200-146212200	Weak transcription	Primary neutrophils fromperipheralblood	blood
2	chr6:146186400-146213200	Weak transcription	Brain Anterior Caudate	brain
3	chr6:146188000-146218800	Weak transcription	Right Ventricle	heart
4	chr6:146189400-146214400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
5	chr6:146194800-146212400	Weak transcription	HUVEC	blood vessel
6	chr6:146196600-146212200	Weak transcription	Aorta	Aorta
7	chr6:146196600-146219600	Weak transcription	HMEC	breast
8	chr6:146197800-146219600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr6:146198200-146212400	Weak transcription	Fetal Kidney	kidney
10	chr6:146198200-146218600	Weak transcription	Fetal Heart	heart
11	chr6:146198200-146225600	Weak transcription	HSMMtube	muscle
12	chr6:146199800-146214400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
13	chr6:146200000-146214200	Weak transcription	Brain Inferior Temporal Lobe	brain
14	chr6:146200400-146228600	Weak transcription	Pancreas	Pancrea
15	chr6:146200600-146212200	Weak transcription	NHDF-Ad	bronchial
16	chr6:146200800-146213400	Weak transcription	Cortex derived primary cultured neurospheres	brain
17	chr6:146201200-146217400	Strong transcription	HUES64 Cell Line	embryonic stem cell
18	chr6:146201200-146225600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
19	chr6:146201200-146230400	Weak transcription	NHEK	skin
20	chr6:146201600-146212000	Weak transcription	Muscle Satellite Cultured Cells	--
21	chr6:146201800-146219600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
22	chr6:146202800-146213800	Weak transcription	GM12878-XiMat	blood
23	chr6:146202800-146220000	Weak transcription	Thymus	Thymus
24	chr6:146203200-146219600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr6:146203400-146218600	Weak transcription	A549	lung
26	chr6:146204600-146214400	Weak transcription	Hela-S3	cervix
27	chr6:146204800-146224800	Weak transcription	Rectal Smooth Muscle	rectum
28	chr6:146205400-146214800	Weak transcription	Placenta Amnion	Placenta Amnion
29	chr6:146205600-146212000	Weak transcription	Brain Cingulate Gyrus	brain
30	chr6:146206600-146212000	Strong transcription	iPS-20b Cell Line	embryonic stem cell
31	chr6:146206600-146215400	Strong transcription	Adipose Nuclei	Adipose
32	chr6:146206800-146219600	Weak transcription	Fetal Intestine Small	intestine
33	chr6:146207400-146217600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
34	chr6:146207600-146212000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
35	chr6:146207800-146213600	Strong transcription	Primary T cells from cord blood	blood
36	chr6:146207800-146240200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
37	chr6:146208000-146219000	Weak transcription	Small Intestine	intestine
38	chr6:146208200-146213200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
39	chr6:146208200-146215400	Strong transcription	Primary T helper cells fromperipheralblood	blood
40	chr6:146208400-146215000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
41	chr6:146208400-146216800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
42	chr6:146208400-146218000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
43	chr6:146208400-146218800	Weak transcription	Colon Smooth Muscle	Colon
44	chr6:146208800-146213200	Strong transcription	Fetal Lung	lung
45	chr6:146208800-146215400	Strong transcription	Fetal Thymus	thymus
46	chr6:146208800-146230000	Weak transcription	Colonic Mucosa	Colon
47	chr6:146209000-146212800	Strong transcription	Duodenum Mucosa	Duodenum
48	chr6:146209000-146214800	Strong transcription	K562	blood
49	chr6:146209000-146216800	Strong transcription	Dnd41	blood
50	chr6:146209200-146215200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--

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