Variant report

Variant	rs16959080
Chromosome Location	chr16:12328493-12328494
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr16:12322209..12324373-chr16:12327262..12329286,2	MCF-7	breast:

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs1032887	0.91[ASN][1000 genomes]
rs10500378	0.87[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs10500380	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs12447994	0.95[ASN][1000 genomes]
rs13332306	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs13380622	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs16959078	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs16959097	0.91[ASN][1000 genomes]
rs16959100	0.91[ASN][1000 genomes]
rs16959126	0.91[ASN][1000 genomes]
rs16959130	0.91[ASN][1000 genomes]
rs2271269	0.87[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs28408454	1.00[ASN][1000 genomes]
rs41325045	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap]
rs60280624	0.91[ASN][1000 genomes]
rs6498273	1.00[ASN][1000 genomes]
rs7187929	1.00[ASN][1000 genomes]
rs7189091	0.82[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs8058627	0.91[ASN][1000 genomes]
rs8062145	1.00[ASN][1000 genomes]
rs870641	0.91[ASN][1000 genomes]
rs905948	0.91[ASN][1000 genomes]
rs9927344	0.91[ASN][1000 genomes]
rs9929445	1.00[JPT][hapmap]
rs9940308	1.00[JPT][hapmap];0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1043096	chr16:12013915-12840769	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
2	nsv905348	chr16:12299936-12358206	Enhancers Weak transcription Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	nsv833141	chr16:12314613-12487992	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:66 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:12297400-12353800	Weak transcription	Gastric	stomach
2	chr16:12306400-12330400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr16:12308000-12371400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
4	chr16:12309800-12371200	Weak transcription	Monocytes-CD14+_RO01746	blood
5	chr16:12310600-12328600	Weak transcription	Aorta	Aorta
6	chr16:12311800-12333400	Weak transcription	Primary T helper cells fromperipheralblood	blood
7	chr16:12313800-12329800	Weak transcription	Primary T cells fromperipheralblood	blood
8	chr16:12314000-12329000	Weak transcription	Skeletal Muscle Male	skeletal muscle
9	chr16:12319800-12328600	Weak transcription	Brain Angular Gyrus	brain
10	chr16:12320200-12332600	Weak transcription	Brain Germinal Matrix	brain
11	chr16:12322400-12338000	Weak transcription	Primary monocytes fromperipheralblood	blood
12	chr16:12322600-12353600	Weak transcription	Lung	lung
13	chr16:12323000-12328600	Weak transcription	Adipose Nuclei	Adipose
14	chr16:12323000-12328600	Weak transcription	Right Ventricle	heart
15	chr16:12323000-12330000	Weak transcription	Primary T cells from cord blood	blood
16	chr16:12323000-12330400	Weak transcription	Fetal Muscle Trunk	muscle
17	chr16:12323000-12330600	Weak transcription	Spleen	Spleen
18	chr16:12323000-12348600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
19	chr16:12323400-12394200	Weak transcription	Primary T helper cells PMA-I stimulated	--
20	chr16:12323800-12328600	Weak transcription	H9 Cell Line	embryonic stem cell
21	chr16:12323800-12328600	Weak transcription	Left Ventricle	heart
22	chr16:12323800-12330400	Weak transcription	Thymus	Thymus
23	chr16:12323800-12332600	Weak transcription	Esophagus	oesophagus
24	chr16:12323800-12332600	Weak transcription	Pancreas	Pancrea
25	chr16:12323800-12373000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
26	chr16:12324400-12328800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
27	chr16:12324400-12330000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
28	chr16:12324400-12330200	Weak transcription	Fetal Kidney	kidney
29	chr16:12324400-12332800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
30	chr16:12324400-12340600	Weak transcription	Duodenum Mucosa	Duodenum
31	chr16:12324600-12328600	Weak transcription	Cortex derived primary cultured neurospheres	brain
32	chr16:12324600-12328600	Weak transcription	Brain Inferior Temporal Lobe	brain
33	chr16:12324600-12328600	Weak transcription	Ovary	ovary
34	chr16:12324600-12329000	Weak transcription	Colon Smooth Muscle	Colon
35	chr16:12324600-12334400	Weak transcription	Fetal Intestine Large	intestine
36	chr16:12324600-12337400	Weak transcription	Fetal Intestine Small	intestine
37	chr16:12324800-12329000	Weak transcription	Fetal Brain Male	brain
38	chr16:12325600-12339600	Weak transcription	Pancreatic Islets	Pancreatic Islet
39	chr16:12326000-12328600	Weak transcription	HSMMtube	muscle
40	chr16:12326000-12332200	Weak transcription	NHEK	skin
41	chr16:12326000-12334000	Weak transcription	Fetal Stomach	stomach
42	chr16:12326000-12334600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
43	chr16:12326200-12328600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
44	chr16:12326200-12328600	Weak transcription	Brain Hippocampus Middle	brain
45	chr16:12326200-12328600	Weak transcription	HSMM	muscle
46	chr16:12326200-12330400	Weak transcription	NH-A	brain
47	chr16:12326400-12328600	Weak transcription	Osteobl	bone
48	chr16:12326600-12328600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
49	chr16:12326600-12328600	Weak transcription	Muscle Satellite Cultured Cells	--
50	chr16:12326600-12328600	Weak transcription	NHDF-Ad	bronchial

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