Variant report

Variant	rs16958050
Chromosome Location	chr15:73892378-73892379
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:73891083..73895912-chr15:73975299..73977983,6	MCF-7	breast:
2	chr15:73890210..73895158-chr15:73907012..73911430,4	MCF-7	breast:
3	chr15:73887376..73889104-chr15:73891545..73893997,2	MCF-7	breast:
4	chr15:73892279..73895385-chr15:73924684..73929029,4	MCF-7	breast:
5	chr15:73881398..73883400-chr15:73891202..73894116,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000103855	Chromatin interaction
ENSG00000156642	Chromatin interaction

Extended variants
information (count: 61 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:60)

rs_ID	r²[population]
rs10152645	0.89[JPT][hapmap]
rs10162605	0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10163172	0.86[EUR][1000 genomes]
rs1044581	0.88[JPT][hapmap]
rs11072433	0.88[JPT][hapmap]
rs11574484	0.88[JPT][hapmap]
rs11574485	0.88[JPT][hapmap]
rs11638472	0.82[EUR][1000 genomes]
rs11854138	0.82[CEU][hapmap]
rs11854774	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11856313	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12324832	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12908815	0.86[EUR][1000 genomes]
rs13380155	1.00[CEU][hapmap];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs13380245	0.82[CEU][hapmap];0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1481087	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16957919	0.80[EUR][1000 genomes]
rs16957997	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs16958019	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs16958025	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs16958041	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2291012	0.88[JPT][hapmap]
rs2291014	0.88[JPT][hapmap]
rs2306462	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2415153	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs28834466	1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3889590	0.82[EUR][1000 genomes]
rs55636021	0.86[EUR][1000 genomes]
rs55695286	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs56190024	0.86[EUR][1000 genomes]
rs56227598	0.82[EUR][1000 genomes]
rs57995256	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs60419012	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6495066	0.82[EUR][1000 genomes]
rs7163212	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7163693	0.87[CEU][hapmap];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7164953	1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7165447	0.85[CEU][hapmap];0.89[JPT][hapmap];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7166673	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7169976	0.85[CEU][hapmap];0.86[EUR][1000 genomes]
rs7172448	0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7173068	0.82[EUR][1000 genomes]
rs7176174	0.89[JPT][hapmap]
rs7176452	0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7176484	0.89[JPT][hapmap]
rs7176701	0.88[JPT][hapmap]
rs7177731	0.85[CEU][hapmap]
rs7177814	0.88[JPT][hapmap]
rs7178133	0.88[JPT][hapmap]
rs7178806	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7182876	0.89[JPT][hapmap]
rs729155	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs8027255	0.82[EUR][1000 genomes]
rs8028749	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs8032265	0.82[CEU][hapmap]
rs8033242	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs8036438	0.87[CEU][hapmap]
rs8039862	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs8040552	0.87[ASN][1000 genomes]
rs899271	0.89[JPT][hapmap]

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	nsv1037540	chr15:73712637-73982420	Weak transcription Bivalent Enhancer Enhancers Strong transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:73847400-73893200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr15:73880000-73894600	Weak transcription	Fetal Thymus	thymus
3	chr15:73880200-73894000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
4	chr15:73881200-73893800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
5	chr15:73881400-73894000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
6	chr15:73881400-73894400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
7	chr15:73882000-73893800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
8	chr15:73882200-73895000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
9	chr15:73882800-73893200	Weak transcription	Liver	Liver
10	chr15:73882800-73893200	Weak transcription	Colonic Mucosa	Colon
11	chr15:73882800-73894200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
12	chr15:73884400-73893200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
13	chr15:73884400-73894000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
14	chr15:73884600-73893400	Weak transcription	Fetal Kidney	kidney
15	chr15:73884600-73893800	Weak transcription	Primary hematopoietic stem cells	blood
16	chr15:73884600-73894000	Weak transcription	Primary B cells from peripheral blood	blood
17	chr15:73884600-73894200	Weak transcription	Primary T cells fromperipheralblood	blood
18	chr15:73884600-73894400	Weak transcription	Thymus	Thymus
19	chr15:73884800-73892400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
20	chr15:73884800-73894000	Weak transcription	Primary T helper cells fromperipheralblood	blood
21	chr15:73885000-73892400	Weak transcription	Primary T helper cells PMA-I stimulated	--
22	chr15:73885600-73894800	Enhancers	Duodenum Smooth Muscle	Duodenum
23	chr15:73885600-73895600	Enhancers	Brain Cingulate Gyrus	brain
24	chr15:73885800-73895400	Enhancers	Right Atrium	heart
25	chr15:73885800-73895400	Enhancers	Right Ventricle	heart
26	chr15:73885800-73895800	Enhancers	Brain Anterior Caudate	brain
27	chr15:73885800-73895800	Enhancers	Psoas Muscle	Psoas
28	chr15:73885800-73896200	Enhancers	Cortex derived primary cultured neurospheres	brain
29	chr15:73885800-73896200	Enhancers	Colon Smooth Muscle	Colon
30	chr15:73886200-73893400	Weak transcription	Primary neutrophils fromperipheralblood	blood
31	chr15:73886400-73893400	Weak transcription	Primary monocytes fromperipheralblood	blood
32	chr15:73886400-73895600	Enhancers	Small Intestine	intestine
33	chr15:73886800-73893200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
34	chr15:73886800-73893200	Weak transcription	Fetal Brain Female	brain
35	chr15:73886800-73893800	Enhancers	Skeletal Muscle Female	skeletal muscle
36	chr15:73886800-73895400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
37	chr15:73887000-73894400	Weak transcription	Primary T cells from cord blood	blood
38	chr15:73887800-73893800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
39	chr15:73888000-73895200	Enhancers	Ovary	ovary
40	chr15:73888200-73894400	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
41	chr15:73888200-73895600	Enhancers	HMEC	breast
42	chr15:73888200-73895600	Enhancers	Osteobl	bone
43	chr15:73888400-73894000	Enhancers	iPS-15b Cell Line	embryonic stem cell
44	chr15:73888400-73896400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
45	chr15:73888600-73895200	Enhancers	Fetal Muscle Leg	muscle
46	chr15:73888800-73893400	Weak transcription	Placenta Amnion	Placenta Amnion
47	chr15:73888800-73893600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
48	chr15:73889200-73893800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
49	chr15:73889600-73892400	Weak transcription	H9 Cell Line	embryonic stem cell
50	chr15:73889600-73892800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived

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