Variant report

Variant	rs11965425
Chromosome Location	chr6:163851581-163851582
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:163838995..163843341-chr6:163850269..163853237,5	K562	blood:

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs10484571	1.00[YRI][hapmap];0.88[AFR][1000 genomes]
rs10484572	0.91[YRI][hapmap]
rs10484573	1.00[YRI][hapmap];0.88[AFR][1000 genomes]
rs11962850	1.00[AFR][1000 genomes]
rs11964510	0.88[AFR][1000 genomes]
rs11964587	0.88[AFR][1000 genomes]
rs11965709	1.00[YRI][hapmap];0.88[AFR][1000 genomes]
rs11966710	1.00[YRI][hapmap];0.88[AFR][1000 genomes]
rs11966885	1.00[YRI][hapmap];0.88[AFR][1000 genomes]
rs11966919	0.85[AFR][1000 genomes]
rs11966922	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs11966958	0.91[YRI][hapmap];0.88[AFR][1000 genomes]
rs11969530	1.00[YRI][hapmap];0.96[AFR][1000 genomes]
rs11970766	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs16888837	0.89[YRI][hapmap]
rs16895001	1.00[YRI][hapmap];0.92[AFR][1000 genomes]
rs16895012	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs16895056	1.00[YRI][hapmap];0.96[AFR][1000 genomes]
rs16895066	1.00[YRI][hapmap];0.88[AFR][1000 genomes]
rs16895078	1.00[YRI][hapmap];0.88[AFR][1000 genomes]
rs16895118	0.89[YRI][hapmap]
rs16895125	0.88[AFR][1000 genomes]
rs16895139	0.91[YRI][hapmap]
rs3846780	1.00[YRI][hapmap];0.96[AFR][1000 genomes]
rs3903714	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs56702350	1.00[AFR][1000 genomes]
rs57292071	0.96[AFR][1000 genomes]
rs57952819	0.85[AFR][1000 genomes]
rs59845233	0.88[AFR][1000 genomes]
rs60965967	0.83[AFR][1000 genomes]
rs61306342	1.00[AFR][1000 genomes]
rs62428365	1.00[AFR][1000 genomes]
rs6937286	0.88[AFR][1000 genomes]
rs73784410	0.88[AFR][1000 genomes]
rs73784416	0.96[AFR][1000 genomes]
rs73787639	0.88[AFR][1000 genomes]
rs73787643	0.88[AFR][1000 genomes]
rs73787648	0.88[AFR][1000 genomes]
rs73787650	0.88[AFR][1000 genomes]
rs7754815	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs7755028	0.91[YRI][hapmap];1.00[AFR][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	nsv932127	chr6:163000261-163950870	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv534621	chr6:163731741-163950870	Bivalent/Poised TSS Enhancers Flanking Active TSS Weak transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	esv1797109	chr6:163834147-163908115	Genic enhancers Enhancers Weak transcription Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv1019551	chr6:163842358-163965216	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:94 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:163837400-163857200	Weak transcription	Spleen	Spleen
2	chr6:163838000-163851600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr6:163838000-163860600	Weak transcription	Primary B cells from peripheral blood	blood
4	chr6:163839800-163851600	Weak transcription	H1 Cell Line	embryonic stem cell
5	chr6:163840800-163865000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
6	chr6:163840800-163881400	Weak transcription	Fetal Stomach	stomach
7	chr6:163841600-163853200	Enhancers	Adipose Nuclei	Adipose
8	chr6:163841600-163858600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
9	chr6:163841600-163864400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
10	chr6:163842600-163865200	Weak transcription	Fetal Kidney	kidney
11	chr6:163843800-163856200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
12	chr6:163843800-163862600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
13	chr6:163844200-163853600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr6:163844200-163860400	Weak transcription	Lung	lung
15	chr6:163845400-163851600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
16	chr6:163845400-163877800	Weak transcription	Fetal Muscle Leg	muscle
17	chr6:163846000-163861600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
18	chr6:163846400-163860000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
19	chr6:163847000-163853200	Enhancers	Liver	Liver
20	chr6:163847400-163852000	Enhancers	Rectal Smooth Muscle	rectum
21	chr6:163847400-163852600	Enhancers	HUES64 Cell Line	embryonic stem cell
22	chr6:163847400-163853200	Enhancers	HUES48 Cell Line	embryonic stem cell
23	chr6:163847600-163853200	Enhancers	Breast Myoepithelial Primary Cells	Breast
24	chr6:163847800-163853000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
25	chr6:163847800-163862400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
26	chr6:163847800-163862600	Weak transcription	Aorta	Aorta
27	chr6:163848200-163852200	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
28	chr6:163848200-163853400	Weak transcription	Left Ventricle	heart
29	chr6:163848400-163852200	Enhancers	Colon Smooth Muscle	Colon
30	chr6:163848400-163852600	Enhancers	NHDF-Ad	bronchial
31	chr6:163848600-163852200	Genic enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr6:163848600-163852200	Enhancers	HUES6 Cell Line	embryonic stem cell
33	chr6:163848600-163852400	Enhancers	iPS-18 Cell Line	embryonic stem cell
34	chr6:163848600-163852800	Enhancers	iPS-15b Cell Line	embryonic stem cell
35	chr6:163848600-163855400	Enhancers	HUVEC	blood vessel
36	chr6:163848800-163851600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
37	chr6:163848800-163878400	Weak transcription	Pancreas	Pancrea
38	chr6:163849000-163852000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
39	chr6:163849200-163851600	Weak transcription	Stomach Smooth Muscle	stomach
40	chr6:163849200-163859000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
41	chr6:163849400-163851600	Weak transcription	HMEC	breast
42	chr6:163849400-163851800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
43	chr6:163849600-163852200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
44	chr6:163849600-163853400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
45	chr6:163849800-163851600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
46	chr6:163850000-163852200	Enhancers	Primary T helper cells PMA-I stimulated	--
47	chr6:163850000-163858000	Weak transcription	HepG2	liver
48	chr6:163850200-163851600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
49	chr6:163850200-163851600	Enhancers	Skeletal Muscle Male	skeletal muscle
50	chr6:163850200-163852400	Enhancers	Brain Germinal Matrix	brain

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