Variant report

Variant	rs16958041
Chromosome Location	chr15:73885443-73885444
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:73883878..73886307-chr15:73924446..73926967,3	MCF-7	breast:
2	chr15:73884268..73887055-chr15:73887297..73890115,2	K562	blood:
3	chr15:73872462..73876250-chr15:73883404..73887216,4	MCF-7	breast:
4	chr15:73881996..73883708-chr15:73884877..73886629,2	K562	blood:
5	chr15:73877182..73878738-chr15:73883851..73886514,2	K562	blood:
6	chr15:73884170..73887060-chr15:73925275..73926977,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000156642	Chromatin interaction

Extended variants
information (count: 60 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:59)

rs_ID	r²[population]
rs10152645	0.89[JPT][hapmap]
rs10162605	0.80[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10163172	0.84[EUR][1000 genomes]
rs1044581	0.88[JPT][hapmap]
rs11072433	0.88[JPT][hapmap]
rs11574484	0.88[JPT][hapmap]
rs11574485	0.88[JPT][hapmap]
rs11638472	0.80[EUR][1000 genomes]
rs11854138	0.82[CEU][hapmap]
rs11854774	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11856313	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12324832	0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12908815	0.84[EUR][1000 genomes]
rs13380155	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs13380245	0.82[CEU][hapmap];0.84[EUR][1000 genomes]
rs1481087	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs16957997	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs16958019	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs16958025	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16958050	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];0.89[YRI][hapmap];0.88[AFR][1000 genomes];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2415153	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs28834466	0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3889590	0.80[EUR][1000 genomes]
rs55636021	0.84[EUR][1000 genomes]
rs55695286	0.84[EUR][1000 genomes]
rs56190024	0.84[EUR][1000 genomes]
rs56227598	0.80[EUR][1000 genomes]
rs57995256	0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs60419012	0.85[AFR][1000 genomes];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6495066	0.80[EUR][1000 genomes]
rs7163212	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7163693	0.87[CEU][hapmap];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7164953	0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7165447	0.85[CEU][hapmap];0.89[JPT][hapmap];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7166673	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7169976	0.85[CEU][hapmap];0.84[EUR][1000 genomes]
rs7172448	0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7173068	0.80[EUR][1000 genomes]
rs7176174	0.89[JPT][hapmap]
rs7176452	0.83[AFR][1000 genomes];0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[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];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7182876	0.89[JPT][hapmap]
rs729155	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs8027255	0.80[EUR][1000 genomes]
rs8028749	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.99[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs8032265	0.82[CEU][hapmap]
rs8033242	1.00[CEU][hapmap];0.92[EUR][1000 genomes]
rs8036438	0.87[CEU][hapmap]
rs8039862	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs8040552	0.86[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:126 , 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	chr15:73858200-73885800	Strong transcription	Monocytes-CD14+_RO01746	blood
3	chr15:73863200-73889400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr15:73870400-73887000	Strong transcription	Primary T cells from cord blood	blood
5	chr15:73871600-73886000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
6	chr15:73871600-73886400	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr15:73871600-73887400	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
8	chr15:73873200-73888800	Strong transcription	NHEK	skin
9	chr15:73876000-73885800	Weak transcription	Stomach Mucosa	stomach
10	chr15:73876200-73885800	Weak transcription	Fetal Brain Male	brain
11	chr15:73877600-73886800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
12	chr15:73878600-73885800	Weak transcription	Small Intestine	intestine
13	chr15:73879800-73885600	Weak transcription	Fetal Heart	heart
14	chr15:73880000-73887000	Weak transcription	Aorta	Aorta
15	chr15:73880000-73888600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
16	chr15:73880000-73894600	Weak transcription	Fetal Thymus	thymus
17	chr15:73880200-73885600	Weak transcription	K562	blood
18	chr15:73880200-73888000	Weak transcription	H1 Cell Line	embryonic stem cell
19	chr15:73880200-73888400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
20	chr15:73880200-73888400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
21	chr15:73880200-73894000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
22	chr15:73881000-73892000	Weak transcription	Hela-S3	cervix
23	chr15:73881200-73885600	Weak transcription	Pancreatic Islets	Pancreatic Islet
24	chr15:73881200-73893800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
25	chr15:73881400-73894000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
26	chr15:73881400-73894400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
27	chr15:73881600-73885800	Weak transcription	Psoas Muscle	Psoas
28	chr15:73881600-73887200	Weak transcription	Brain Hippocampus Middle	brain
29	chr15:73881600-73888400	Weak transcription	Placenta Amnion	Placenta Amnion
30	chr15:73881600-73890400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
31	chr15:73881800-73891000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
32	chr15:73882000-73885800	Weak transcription	Brain Substantia Nigra	brain
33	chr15:73882000-73885800	Weak transcription	Pancreas	Pancrea
34	chr15:73882000-73893800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
35	chr15:73882200-73888200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
36	chr15:73882200-73895000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
37	chr15:73882400-73885800	Weak transcription	Dnd41	blood
38	chr15:73882600-73888200	Weak transcription	Esophagus	oesophagus
39	chr15:73882800-73887800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
40	chr15:73882800-73888400	Weak transcription	HSMMtube	muscle
41	chr15:73882800-73889200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
42	chr15:73882800-73890200	Weak transcription	NHLF	lung
43	chr15:73882800-73893200	Weak transcription	Liver	Liver
44	chr15:73882800-73893200	Weak transcription	Colonic Mucosa	Colon
45	chr15:73882800-73894200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
46	chr15:73884000-73885800	Weak transcription	Colon Smooth Muscle	Colon
47	chr15:73884200-73885600	Weak transcription	Brain Cingulate Gyrus	brain
48	chr15:73884200-73885800	Weak transcription	Cortex derived primary cultured neurospheres	brain
49	chr15:73884200-73888000	Weak transcription	Ovary	ovary
50	chr15:73884200-73889000	Weak transcription	iPS-18 Cell Line	embryonic stem cell

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