Variant report

Variant	rs16881197
Chromosome Location	chr6:72096860-72096861
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-B3GAT2-3	chr6:72096572-72097133	NONHSAT113497

Extended variants
information (count: 11 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10080965	0.91[AFR][1000 genomes]
rs59106567	0.86[AFR][1000 genomes]
rs73520627	0.90[AFR][1000 genomes]
rs769352	1.00[ASW][hapmap];0.83[YRI][hapmap];0.83[AFR][1000 genomes]
rs9446382	0.91[AFR][1000 genomes]
rs9446383	0.87[ASW][hapmap]
rs9446388	0.90[AFR][1000 genomes]
rs9446390	0.88[AFR][1000 genomes]
rs9455446	0.85[AFR][1000 genomes]
rs9455453	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830684	chr6:72094842-72282684	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	488 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:71 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:72061600-72097000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
2	chr6:72076200-72103200	Weak transcription	Aorta	Aorta
3	chr6:72077800-72097000	Weak transcription	Psoas Muscle	Psoas
4	chr6:72077800-72097200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
5	chr6:72079800-72098800	Weak transcription	Brain Substantia Nigra	brain
6	chr6:72083800-72097800	Weak transcription	Placenta	Placenta
7	chr6:72084200-72097000	Weak transcription	Skeletal Muscle Male	skeletal muscle
8	chr6:72084200-72106600	Weak transcription	Fetal Muscle Trunk	muscle
9	chr6:72084400-72099000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr6:72085800-72105400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr6:72087400-72098200	Weak transcription	Colonic Mucosa	Colon
12	chr6:72088400-72097800	Weak transcription	Fetal Muscle Leg	muscle
13	chr6:72088600-72097000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
14	chr6:72088800-72101000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
15	chr6:72090400-72101000	Weak transcription	Gastric	stomach
16	chr6:72091800-72097200	Weak transcription	Fetal Stomach	stomach
17	chr6:72093400-72101200	Genic enhancers	Hela-S3	cervix
18	chr6:72093400-72106400	Weak transcription	Spleen	Spleen
19	chr6:72093600-72097800	Weak transcription	Left Ventricle	heart
20	chr6:72093600-72097800	Weak transcription	Pancreas	Pancrea
21	chr6:72093600-72097800	Weak transcription	Right Ventricle	heart
22	chr6:72093600-72099000	Enhancers	Muscle Satellite Cultured Cells	--
23	chr6:72093600-72099000	Weak transcription	Lung	lung
24	chr6:72093600-72099200	Enhancers	HMEC	breast
25	chr6:72093800-72097200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
26	chr6:72094000-72097800	Weak transcription	Brain Anterior Caudate	brain
27	chr6:72094000-72099200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
28	chr6:72094000-72105200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
29	chr6:72094200-72097000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
30	chr6:72094200-72097000	Weak transcription	Cortex derived primary cultured neurospheres	brain
31	chr6:72094600-72097200	Genic enhancers	HSMM	muscle
32	chr6:72094600-72097600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
33	chr6:72094600-72099600	Enhancers	Fetal Intestine Large	intestine
34	chr6:72094800-72097800	Enhancers	Breast Myoepithelial Primary Cells	Breast
35	chr6:72094800-72099200	Enhancers	NHDF-Ad	bronchial
36	chr6:72094800-72100200	Enhancers	Fetal Intestine Small	intestine
37	chr6:72095000-72103600	Weak transcription	Stomach Mucosa	stomach
38	chr6:72095200-72099200	Enhancers	Osteobl	bone
39	chr6:72095400-72099000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
40	chr6:72095400-72103600	Weak transcription	Pancreatic Islets	Pancreatic Islet
41	chr6:72095600-72097000	Weak transcription	Skeletal Muscle Female	skeletal muscle
42	chr6:72095600-72098800	Weak transcription	Fetal Kidney	kidney
43	chr6:72095600-72099000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
44	chr6:72095600-72099400	Enhancers	NHEK	skin
45	chr6:72095800-72097200	Enhancers	NH-A	brain
46	chr6:72095800-72097600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
47	chr6:72095800-72098200	Weak transcription	Brain Hippocampus Middle	brain
48	chr6:72095800-72098800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
49	chr6:72095800-72099600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
50	chr6:72096000-72097000	Weak transcription	Liver	Liver

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