Variant report

Variant	rs9927705
Chromosome Location	chr16:12354918-12354919
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr16:12322308..12323244-chr16:12354404..12355100,3	MCF-7	breast:
2	chr16:12346604..12348584-chr16:12353850..12356215,2	K562	blood:
3	chr16:12188975..12189581-chr16:12354173..12354926,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000261293	Chromatin interaction

Extended variants
information (count: 59 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs11075057	0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11075058	0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11075059	0.88[EUR][1000 genomes]
rs11639640	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11644788	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11649626	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11861914	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12148953	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12445263	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12445569	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12446650	0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12448443	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13335852	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17697005	0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17764604	0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2089251	0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs209851	0.84[EUR][1000 genomes]
rs209853	0.81[EUR][1000 genomes]
rs209856	0.86[EUR][1000 genomes]
rs2904423	0.91[AFR][1000 genomes];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35818743	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4305040	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4780417	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4780418	0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4780419	0.84[EUR][1000 genomes]
rs4781200	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4781201	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4781202	0.87[EUR][1000 genomes]
rs6498274	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7189386	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7189945	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7191435	0.80[EUR][1000 genomes]
rs7191442	0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7192102	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7194718	0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7194981	0.91[EUR][1000 genomes]
rs7195520	0.91[AFR][1000 genomes];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7197417	0.88[EUR][1000 genomes]
rs7199556	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7200289	0.82[EUR][1000 genomes]
rs7204209	0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7204333	0.89[EUR][1000 genomes]
rs8046012	0.90[EUR][1000 genomes]
rs8051758	0.82[EUR][1000 genomes]
rs8058876	0.82[ASN][1000 genomes]
rs8061549	0.86[EUR][1000 genomes]
rs8063991	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs868773	0.90[EUR][1000 genomes]
rs869289	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs905950	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9630612	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9921728	0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9928214	0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9930625	0.88[EUR][1000 genomes]
rs9937220	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][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	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
4	esv3422834	chr16:12354897-12355426	Weak transcription Enhancers Flanking Active TSS Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:59 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:12308000-12371400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
2	chr16:12309800-12371200	Weak transcription	Monocytes-CD14+_RO01746	blood
3	chr16:12323400-12394200	Weak transcription	Primary T helper cells PMA-I stimulated	--
4	chr16:12323800-12373000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
5	chr16:12330800-12373000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
6	chr16:12334000-12356600	Weak transcription	Right Atrium	heart
7	chr16:12334400-12356200	Weak transcription	Stomach Smooth Muscle	stomach
8	chr16:12334600-12371800	Weak transcription	Adipose Nuclei	Adipose
9	chr16:12338200-12356400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr16:12338200-12396200	Weak transcription	Thymus	Thymus
11	chr16:12346800-12356200	Weak transcription	Fetal Brain Male	brain
12	chr16:12347200-12356200	Weak transcription	Cortex derived primary cultured neurospheres	brain
13	chr16:12347800-12356400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
14	chr16:12347800-12395200	Weak transcription	Right Ventricle	heart
15	chr16:12348200-12371400	Weak transcription	Primary T helper cells fromperipheralblood	blood
16	chr16:12350200-12371600	Weak transcription	GM12878-XiMat	blood
17	chr16:12351200-12373000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
18	chr16:12351200-12382800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
19	chr16:12351400-12356000	Weak transcription	Pancreatic Islets	Pancreatic Islet
20	chr16:12352000-12355400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
21	chr16:12352600-12356200	Weak transcription	Rectal Mucosa Donor 31	rectum
22	chr16:12352600-12356400	Weak transcription	Rectal Mucosa Donor 29	rectum
23	chr16:12353000-12356400	Weak transcription	Primary B cells from cord blood	blood
24	chr16:12353200-12356000	Weak transcription	Primary T cells from cord blood	blood
25	chr16:12353200-12356400	Weak transcription	Brain Inferior Temporal Lobe	brain
26	chr16:12353200-12358200	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
27	chr16:12353400-12356200	Weak transcription	Brain Hippocampus Middle	brain
28	chr16:12353400-12356600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
29	chr16:12353600-12355000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
30	chr16:12353800-12355000	Enhancers	NHLF	lung
31	chr16:12353800-12356600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
32	chr16:12353800-12356600	Weak transcription	Brain Angular Gyrus	brain
33	chr16:12354000-12355400	Enhancers	Liver	Liver
34	chr16:12354000-12356200	Weak transcription	Brain Germinal Matrix	brain
35	chr16:12354000-12356400	Weak transcription	Brain Substantia Nigra	brain
36	chr16:12354200-12355000	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
37	chr16:12354200-12356400	Weak transcription	Brain Anterior Caudate	brain
38	chr16:12354400-12355000	Flanking Active TSS	Fetal Muscle Trunk	muscle
39	chr16:12354400-12355000	Enhancers	Placenta	Placenta
40	chr16:12354400-12355000	Flanking Active TSS	Ovary	ovary
41	chr16:12354400-12356200	Weak transcription	Brain Cingulate Gyrus	brain
42	chr16:12354400-12357000	Flanking Active TSS	HepG2	liver
43	chr16:12354600-12355400	Active TSS	A549	lung
44	chr16:12354600-12356000	Weak transcription	Fetal Kidney	kidney
45	chr16:12354600-12356000	Weak transcription	Fetal Muscle Leg	muscle
46	chr16:12354600-12356200	Weak transcription	Duodenum Mucosa	Duodenum
47	chr16:12354600-12356200	Weak transcription	Fetal Intestine Small	intestine
48	chr16:12354600-12356400	Weak transcription	Primary B cells from peripheral blood	blood
49	chr16:12354600-12358000	Weak transcription	Lung	lung
50	chr16:12354600-12358800	Weak transcription	Fetal Heart	heart

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