Variant report

Variant	rs62443351
Chromosome Location	chr6:86270212-86270213
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-FAM165A-1	chr6:86270033-86270491	ENSG00000223998.1

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs62443304	1.00[ASN][1000 genomes]
rs62443330	1.00[ASN][1000 genomes]
rs62443332	1.00[ASN][1000 genomes]
rs62443354	1.00[ASN][1000 genomes]
rs62443355	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62443357	1.00[ASN][1000 genomes]
rs62443358	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62444966	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62444986	1.00[ASN][1000 genomes]
rs62444988	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1022445	chr6:85972678-86392968	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	136 gene(s)	inside rSNPs	diseases
2	nsv538349	chr6:85972678-86392968	Active TSS Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	136 gene(s)	inside rSNPs	diseases
3	esv3326486	chr6:86020165-86292456	Weak transcription Genic enhancers Strong transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
4	esv3435075	chr6:86052235-86271910	Strong transcription Weak transcription Active TSS Flanking Active TSS Enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
5	nsv886333	chr6:86199243-86289415	Weak transcription Strong transcription Genic enhancers Enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
6	nsv463939	chr6:86205323-86279737	Weak transcription Strong transcription ZNF genes & repeats Enhancers Genic enhancers Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
7	nsv470839	chr6:86205323-86279737	Strong transcription Weak transcription Enhancers ZNF genes & repeats Genic enhancers Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
8	nsv604093	chr6:86205323-86279737	Weak transcription Strong transcription ZNF genes & repeats Enhancers Genic enhancers Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
9	nsv886334	chr6:86214507-86394403	Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers Enhancers Active TSS 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	124 gene(s)	inside rSNPs	diseases
10	esv1792638	chr6:86224053-86336300	Weak transcription Strong transcription ZNF genes & repeats Enhancers Active TSS Genic enhancers Flanking Active TSS 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	15 gene(s)	inside rSNPs	diseases
11	nsv516516	chr6:86234835-86278691	Strong transcription Weak transcription Genic enhancers Enhancers ZNF genes & repeats Active TSS	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:112 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:86208800-86284600	Weak transcription	Small Intestine	intestine
2	chr6:86208800-86289200	Weak transcription	Pancreas	Pancrea
3	chr6:86221800-86285800	Weak transcription	Fetal Brain Male	brain
4	chr6:86222600-86289400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr6:86223400-86285000	Weak transcription	Brain Substantia Nigra	brain
6	chr6:86224000-86279000	Weak transcription	NHLF	lung
7	chr6:86224200-86302600	Weak transcription	Colonic Mucosa	Colon
8	chr6:86231200-86285000	Weak transcription	Hela-S3	cervix
9	chr6:86233800-86289200	Weak transcription	Spleen	Spleen
10	chr6:86236600-86279000	Weak transcription	HMEC	breast
11	chr6:86241400-86283600	Weak transcription	Fetal Kidney	kidney
12	chr6:86243200-86285200	Weak transcription	Psoas Muscle	Psoas
13	chr6:86243200-86286000	Weak transcription	Rectal Smooth Muscle	rectum
14	chr6:86243400-86301400	Weak transcription	Thymus	Thymus
15	chr6:86243600-86285000	Weak transcription	Brain Cingulate Gyrus	brain
16	chr6:86243600-86285800	Weak transcription	Fetal Brain Female	brain
17	chr6:86243600-86286200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
18	chr6:86243800-86284800	Weak transcription	Brain Angular Gyrus	brain
19	chr6:86244200-86279000	Weak transcription	Placenta Amnion	Placenta Amnion
20	chr6:86244200-86286000	Weak transcription	Right Ventricle	heart
21	chr6:86244200-86289200	Weak transcription	Gastric	stomach
22	chr6:86244400-86281000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
23	chr6:86246400-86279000	Weak transcription	NHEK	skin
24	chr6:86246600-86270800	Weak transcription	HUVEC	blood vessel
25	chr6:86246600-86274200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
26	chr6:86248200-86271200	Strong transcription	Primary monocytes fromperipheralblood	blood
27	chr6:86250200-86284800	Weak transcription	Aorta	Aorta
28	chr6:86252800-86284400	Weak transcription	Skeletal Muscle Male	skeletal muscle
29	chr6:86252800-86289600	Weak transcription	Esophagus	oesophagus
30	chr6:86253400-86286000	Weak transcription	Brain Germinal Matrix	brain
31	chr6:86254800-86271400	Weak transcription	Colon Smooth Muscle	Colon
32	chr6:86254800-86287800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
33	chr6:86256000-86278800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
34	chr6:86257600-86285200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
35	chr6:86257800-86275800	Weak transcription	Brain Hippocampus Middle	brain
36	chr6:86258000-86271200	Weak transcription	Muscle Satellite Cultured Cells	--
37	chr6:86258000-86280600	Weak transcription	HepG2	liver
38	chr6:86258000-86284800	Weak transcription	Fetal Heart	heart
39	chr6:86258000-86286000	Weak transcription	Cortex derived primary cultured neurospheres	brain
40	chr6:86258200-86279600	Weak transcription	Fetal Thymus	thymus
41	chr6:86258400-86271600	Weak transcription	Fetal Lung	lung
42	chr6:86258400-86274400	Weak transcription	HSMMtube	muscle
43	chr6:86258400-86284400	Weak transcription	A549	lung
44	chr6:86258600-86271800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
45	chr6:86258600-86283200	Weak transcription	Pancreatic Islets	Pancreatic Islet
46	chr6:86260600-86281600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
47	chr6:86261400-86270400	Weak transcription	Fetal Intestine Small	intestine
48	chr6:86261400-86275600	Weak transcription	Dnd41	blood
49	chr6:86262800-86271800	Weak transcription	Fetal Intestine Large	intestine
50	chr6:86263000-86272200	Weak transcription	Rectal Mucosa Donor 29	rectum

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