Variant report

Variant	rs9455116
Chromosome Location	chr6:71161669-71161670
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	chr6:71160978..71162736-chr6:71166196..71168492,3	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-C6orf57-7	chr6:71161654-71161690	NONHSAT113448

Extended variants
information (count: 84 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10080714	0.95[AFR][1000 genomes]
rs10440813	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10485117	0.88[AFR][1000 genomes]
rs12332812	0.95[AFR][1000 genomes]
rs12332923	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16869217	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16869242	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16869261	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16869301	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2207424	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2223997	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28555262	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28885692	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs3846749	0.88[AFR][1000 genomes]
rs747454	0.95[AFR][1000 genomes]
rs9294867	0.93[AFR][1000 genomes]
rs9294869	0.95[AFR][1000 genomes]
rs9294870	0.88[AFR][1000 genomes]
rs9294873	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9294875	1.00[AMR][1000 genomes]
rs9294877	0.82[AFR][1000 genomes]
rs9446243	0.88[AFR][1000 genomes]
rs9446244	0.85[AFR][1000 genomes]
rs9446247	0.95[AFR][1000 genomes]
rs9446249	0.83[AFR][1000 genomes]
rs9446251	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9446253	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9446255	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9446256	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9446257	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9446259	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9446260	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9446261	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9446262	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9446263	0.86[AFR][1000 genomes]
rs9446264	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9446265	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9446266	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9455091	0.90[AFR][1000 genomes]
rs9455102	0.88[AFR][1000 genomes]
rs9455103	0.80[AFR][1000 genomes]
rs9455107	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9455109	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9455110	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9455112	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9455115	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9455117	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9455118	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9455119	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9455120	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9455122	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9455123	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9455124	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9455126	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9455127	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9455128	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9455131	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9455134	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9455135	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9455136	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9455137	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9455141	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9455142	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9455143	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9455145	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9455146	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9455147	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9455148	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9455152	0.90[AFR][1000 genomes]
rs9455154	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9455155	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9455157	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9455159	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9455175	0.80[AFR][1000 genomes]
rs9455183	0.82[AFR][1000 genomes]
rs9455184	0.82[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv932111	chr6:70736835-71633094	Enhancers Active TSS Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
2	nsv886142	chr6:70741209-71251421	Weak transcription Strong transcription Enhancers Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
3	nsv1027049	chr6:70961610-71561488	Strong transcription Active TSS Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
4	nsv524328	chr6:70961833-71558805	Flanking Bivalent TSS/Enh Active TSS Weak transcription Strong transcription ZNF genes & repeats Enhancers Bivalent Enhancer Flanking Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
5	nsv917312	chr6:70961903-71601688	Enhancers Genic enhancers Strong transcription Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
6	nsv1026229	chr6:71016272-71183503	Flanking Active TSS Strong transcription Active TSS Weak transcription Enhancers Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
7	nsv886144	chr6:71018467-71214201	Weak transcription Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Enhancers Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
8	nsv886145	chr6:71119524-71317480	Enhancers Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:83 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:71124400-71192800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
2	chr6:71125400-71188800	Weak transcription	Colon Smooth Muscle	Colon
3	chr6:71125400-71188800	Weak transcription	HSMM	muscle
4	chr6:71125600-71162400	Weak transcription	Primary T helper cells PMA-I stimulated	--
5	chr6:71130200-71183200	Weak transcription	Brain Angular Gyrus	brain
6	chr6:71130200-71185400	Weak transcription	K562	blood
7	chr6:71134000-71213400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
8	chr6:71136800-71213600	Weak transcription	Brain Substantia Nigra	brain
9	chr6:71141400-71183400	Weak transcription	Right Ventricle	heart
10	chr6:71141400-71186800	Weak transcription	Fetal Brain Female	brain
11	chr6:71148800-71183200	Weak transcription	Rectal Smooth Muscle	rectum
12	chr6:71149000-71183000	Weak transcription	Fetal Kidney	kidney
13	chr6:71149000-71185600	Weak transcription	Aorta	Aorta
14	chr6:71153200-71183200	Weak transcription	HepG2	liver
15	chr6:71154600-71188800	Weak transcription	Fetal Heart	heart
16	chr6:71155000-71166400	Weak transcription	Stomach Mucosa	stomach
17	chr6:71155000-71185400	Weak transcription	Primary T helper cells fromperipheralblood	blood
18	chr6:71155200-71162200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
19	chr6:71155400-71184000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
20	chr6:71157400-71164000	Weak transcription	HUVEC	blood vessel
21	chr6:71158000-71162400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
22	chr6:71158000-71163200	Weak transcription	Brain Hippocampus Middle	brain
23	chr6:71158000-71165800	Weak transcription	Brain Cingulate Gyrus	brain
24	chr6:71158000-71168200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
25	chr6:71158200-71164800	Weak transcription	Brain Anterior Caudate	brain
26	chr6:71158200-71166800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
27	chr6:71158200-71183200	Weak transcription	Duodenum Smooth Muscle	Duodenum
28	chr6:71158200-71183600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
29	chr6:71158200-71185600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
30	chr6:71158200-71212400	Weak transcription	Fetal Brain Male	brain
31	chr6:71158400-71162000	Weak transcription	HUES64 Cell Line	embryonic stem cell
32	chr6:71158400-71162200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
33	chr6:71158400-71162200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
34	chr6:71158400-71162200	Weak transcription	Monocytes-CD14+_RO01746	blood
35	chr6:71158400-71162400	Weak transcription	HUES48 Cell Line	embryonic stem cell
36	chr6:71158400-71162400	Weak transcription	Primary monocytes fromperipheralblood	blood
37	chr6:71158400-71162600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
38	chr6:71158400-71162600	Weak transcription	A549	lung
39	chr6:71158400-71166400	Weak transcription	Sigmoid Colon	Sigmoid Colon
40	chr6:71158400-71169400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
41	chr6:71158400-71171600	Weak transcription	Fetal Lung	lung
42	chr6:71158400-71178200	Weak transcription	Duodenum Mucosa	Duodenum
43	chr6:71158400-71183200	Weak transcription	Esophagus	oesophagus
44	chr6:71158400-71183400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
45	chr6:71158400-71183400	Weak transcription	Ovary	ovary
46	chr6:71158400-71183600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
47	chr6:71158400-71184000	Weak transcription	H9 Cell Line	embryonic stem cell
48	chr6:71158400-71186800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
49	chr6:71158400-71198000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
50	chr6:71158400-71213600	Weak transcription	NHEK	skin

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