Variant report

Variant	rs16830774
Chromosome Location	chr3:159506431-159506432
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:159480418..159485166-chr3:159503972..159508876,8	MCF-7	breast:
2	chr3:159504199..159507462-chr3:159515627..159518397,3	MCF-7	breast:
3	chr3:159490266..159491970-chr3:159504872..159507711,2	MCF-7	breast:
4	chr3:159504230..159507022-chr3:159529536..159532354,2	MCF-7	breast:
5	chr3:159504063..159506884-chr3:159510912..159512830,2	K562	blood:
6	chr3:159505829..159507763-chr3:159508214..159510388,2	K562	blood:
7	chr3:159504853..159507555-chr3:159550828..159552388,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000250588	Chromatin interaction

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs1846130	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs62270376	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62270378	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62270380	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62270382	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62270384	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62270385	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62270386	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62270388	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62270391	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs62270393	0.81[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62270394	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs62270396	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs62270398	0.84[EUR][1000 genomes]
rs62270399	0.84[EUR][1000 genomes]
rs62270402	0.84[EUR][1000 genomes]
rs6762494	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6762595	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6767193	0.84[EUR][1000 genomes]
rs6770054	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.94[EUR][1000 genomes]
rs6771235	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7637455	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][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	nsv4084	chr3:159492488-159513251	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Strong transcription Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:76 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:159493600-159509200	Weak transcription	Fetal Muscle Trunk	muscle
2	chr3:159493600-159516200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr3:159500400-159509200	Enhancers	HepG2	liver
4	chr3:159501000-159508000	Enhancers	Colon Smooth Muscle	Colon
5	chr3:159501800-159507600	Enhancers	Rectal Mucosa Donor 31	rectum
6	chr3:159501800-159510200	Enhancers	Fetal Intestine Large	intestine
7	chr3:159502000-159522800	Weak transcription	Skeletal Muscle Male	skeletal muscle
8	chr3:159502200-159509000	Weak transcription	H1 Cell Line	embryonic stem cell
9	chr3:159502400-159506800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
10	chr3:159502400-159508000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr3:159502400-159508600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
12	chr3:159502800-159506800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr3:159502800-159508000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
14	chr3:159503000-159510200	Enhancers	Fetal Intestine Small	intestine
15	chr3:159503400-159508000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
16	chr3:159503600-159508000	Enhancers	Duodenum Mucosa	Duodenum
17	chr3:159503800-159509600	Enhancers	Adipose Nuclei	Adipose
18	chr3:159504000-159518600	Enhancers	Brain Hippocampus Middle	brain
19	chr3:159504200-159518400	Enhancers	Brain Substantia Nigra	brain
20	chr3:159504400-159506600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
21	chr3:159504400-159506600	Enhancers	Fetal Heart	heart
22	chr3:159504400-159506600	Enhancers	Placenta	Placenta
23	chr3:159504400-159507400	Enhancers	iPS-20b Cell Line	embryonic stem cell
24	chr3:159504400-159508000	Enhancers	Sigmoid Colon	Sigmoid Colon
25	chr3:159504400-159508200	Enhancers	HUES64 Cell Line	embryonic stem cell
26	chr3:159504400-159508200	Enhancers	Brain Cingulate Gyrus	brain
27	chr3:159504400-159509000	Enhancers	Liver	Liver
28	chr3:159504600-159509400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
29	chr3:159504600-159511200	Enhancers	Brain Anterior Caudate	brain
30	chr3:159504800-159506600	Enhancers	Fetal Lung	lung
31	chr3:159504800-159508800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
32	chr3:159505000-159507200	Enhancers	Small Intestine	intestine
33	chr3:159505000-159515000	Enhancers	Brain Angular Gyrus	brain
34	chr3:159505200-159507400	Enhancers	Placenta Amnion	Placenta Amnion
35	chr3:159505400-159506600	Genic enhancers	HSMM	muscle
36	chr3:159505400-159507000	Weak transcription	Skeletal Muscle Female	skeletal muscle
37	chr3:159505400-159508200	Weak transcription	Colonic Mucosa	Colon
38	chr3:159505600-159506600	Enhancers	Muscle Satellite Cultured Cells	--
39	chr3:159505600-159507000	Enhancers	NHEK	skin
40	chr3:159505600-159512600	Enhancers	Rectal Smooth Muscle	rectum
41	chr3:159505600-159515600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
42	chr3:159505800-159507000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
43	chr3:159505800-159507000	Weak transcription	Aorta	Aorta
44	chr3:159505800-159507400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
45	chr3:159505800-159508600	Weak transcription	Gastric	stomach
46	chr3:159505800-159508800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
47	chr3:159506000-159507200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
48	chr3:159506000-159508800	Weak transcription	HUES6 Cell Line	embryonic stem cell
49	chr3:159506000-159508800	Weak transcription	Right Ventricle	heart
50	chr3:159506000-159509200	Weak transcription	Lung	lung

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