Variant report

Variant	rs28560203
Chromosome Location	chr16:81351866-81351867
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr16:81350616..81353228-chr16:81763798..81765606,2	K562	blood:
2	chr16:81318119..81320735-chr16:81351761..81354471,2	MCF-7	breast:
3	chr16:81037283..81040126-chr16:81351026..81353469,2	K562	blood:

Variant related genes	Relation type
ENSG00000166451	Chromatin interaction

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs11861054	0.83[AMR][1000 genomes]
rs11861072	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11861112	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11861158	0.83[AMR][1000 genomes]
rs11861322	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11861886	0.83[AMR][1000 genomes]
rs11862082	0.83[AMR][1000 genomes]
rs11866294	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11866308	0.89[AMR][1000 genomes]
rs11866327	0.83[AMR][1000 genomes]
rs11866374	0.83[AMR][1000 genomes]
rs11866407	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11866408	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11866700	0.83[AMR][1000 genomes]
rs16955014	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs16955018	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs16955027	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs16955031	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs16955040	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs16955059	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs16955067	0.83[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs16955071	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs16955074	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs16955083	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs16955109	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs16955113	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs16955120	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs16955138	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs16955164	0.83[AMR][1000 genomes]
rs16955173	0.83[AMR][1000 genomes]
rs2317129	0.83[AMR][1000 genomes]
rs28561847	0.83[AMR][1000 genomes]
rs28864156	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs34684636	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs3803653	0.83[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs56859781	0.83[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs57928297	0.87[EUR][1000 genomes]
rs58590084	0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs58594614	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs59579335	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs59586584	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9925624	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9935105	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532569	chr16:80980356-81700149	Weak transcription Flanking Active TSS Genic enhancers Enhancers Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	71 gene(s)	inside rSNPs	diseases
2	nsv532597	chr16:81009718-81388348	Active TSS Weak transcription Strong transcription Flanking Active TSS Enhancers Genic enhancers ZNF genes & repeats 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	56 gene(s)	inside rSNPs	diseases
3	nsv1058519	chr16:81177767-81735333	Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Enhancers Transcr. at gene 5' and 3' Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	36 gene(s)	inside rSNPs	diseases
4	nsv948448	chr16:81198147-81906766	Enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	37 gene(s)	inside rSNPs	diseases
5	nsv1061359	chr16:81349826-81471867	Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Enhancers Genic enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	17 gene(s)	inside rSNPs	diseases
6	nsv542992	chr16:81349826-81471867	Weak transcription Enhancers ZNF genes & repeats Strong transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:96 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:81349600-81352000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr16:81349600-81352000	Weak transcription	Gastric	stomach
3	chr16:81349800-81352400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr16:81349800-81352400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr16:81349800-81352400	Weak transcription	Esophagus	oesophagus
6	chr16:81349800-81352400	Weak transcription	Left Ventricle	heart
7	chr16:81349800-81352400	Weak transcription	Psoas Muscle	Psoas
8	chr16:81349800-81357800	Weak transcription	Lung	lung
9	chr16:81349800-81358000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr16:81349800-81358400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr16:81349800-81358400	Weak transcription	Ovary	ovary
12	chr16:81349800-81365800	Weak transcription	Aorta	Aorta
13	chr16:81350000-81352000	Weak transcription	Colon Smooth Muscle	Colon
14	chr16:81350000-81352000	Weak transcription	Stomach Mucosa	stomach
15	chr16:81350000-81352000	Weak transcription	NH-A	brain
16	chr16:81350000-81352000	Weak transcription	NHDF-Ad	bronchial
17	chr16:81350000-81352200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
18	chr16:81350000-81352200	Weak transcription	HSMMtube	muscle
19	chr16:81350000-81352400	Weak transcription	H1 Cell Line	embryonic stem cell
20	chr16:81350000-81352400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
21	chr16:81350000-81352400	Weak transcription	Placenta Amnion	Placenta Amnion
22	chr16:81350000-81352400	Weak transcription	Rectal Smooth Muscle	rectum
23	chr16:81350000-81352400	Weak transcription	Stomach Smooth Muscle	stomach
24	chr16:81350000-81352400	Weak transcription	NHLF	lung
25	chr16:81350000-81353000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
26	chr16:81350000-81353000	Weak transcription	HUVEC	blood vessel
27	chr16:81350000-81353400	Enhancers	HepG2	liver
28	chr16:81350000-81357200	Weak transcription	Fetal Stomach	stomach
29	chr16:81350000-81358000	Weak transcription	Fetal Intestine Small	intestine
30	chr16:81350000-81358200	Weak transcription	Primary T cells from cord blood	blood
31	chr16:81350000-81358400	Weak transcription	Brain Cingulate Gyrus	brain
32	chr16:81350000-81361400	Weak transcription	Rectal Mucosa Donor 29	rectum
33	chr16:81350000-81361600	Weak transcription	Primary B cells from peripheral blood	blood
34	chr16:81350000-81364800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
35	chr16:81350000-81365800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
36	chr16:81350000-81371200	Weak transcription	H9 Cell Line	embryonic stem cell
37	chr16:81350000-81372000	Weak transcription	Primary B cells from cord blood	blood
38	chr16:81350000-81373200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
39	chr16:81350000-81375000	Weak transcription	Fetal Intestine Large	intestine
40	chr16:81350200-81352000	Weak transcription	Right Ventricle	heart
41	chr16:81350200-81358400	Weak transcription	Right Atrium	heart
42	chr16:81350400-81352000	Weak transcription	Skeletal Muscle Male	skeletal muscle
43	chr16:81350400-81352000	Weak transcription	GM12878-XiMat	blood
44	chr16:81350400-81352200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
45	chr16:81350400-81352200	Weak transcription	Osteobl	bone
46	chr16:81350400-81352400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
47	chr16:81350400-81352400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
48	chr16:81350400-81352400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
49	chr16:81350400-81352400	Weak transcription	Muscle Satellite Cultured Cells	--
50	chr16:81350400-81352400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin

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