Variant report

Variant	rs16940991
Chromosome Location	chr17:15441486-15441487
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs10153259	0.89[JPT][hapmap]
rs12450262	0.81[ASN][1000 genomes]
rs12450302	0.81[ASN][1000 genomes]
rs12450921	0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12451284	0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12938444	0.81[ASN][1000 genomes]
rs12939314	0.89[JPT][hapmap]
rs12943480	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12948266	1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs12953212	0.81[ASN][1000 genomes]
rs17702522	1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs17702771	0.82[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs2013835	0.81[ASN][1000 genomes]
rs2532479	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2654261	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs34236889	0.81[ASN][1000 genomes]
rs34453320	0.81[ASN][1000 genomes]
rs35078459	0.81[ASN][1000 genomes]
rs35406616	0.81[ASN][1000 genomes]
rs35448233	0.81[ASN][1000 genomes]
rs35699886	0.81[ASN][1000 genomes]
rs3852809	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3911955	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4054418	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4791625	0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4792619	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6502459	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6502461	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs6502462	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs716388	1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs7226342	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7359507	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7359511	0.83[ASN][1000 genomes]
rs8064461	0.82[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs8068610	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs8070714	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs8071082	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs8074456	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs917567	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv492304	chr17:15043353-15611753	Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	58 gene(s)	inside rSNPs	diseases
2	nsv916652	chr17:15093600-15856310	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	73 gene(s)	inside rSNPs	diseases
3	nsv1055677	chr17:15294011-15561130	Enhancers Flanking Active TSS Weak transcription Genic enhancers Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
4	nsv1059056	chr17:15294011-15856861	Strong transcription Weak transcription Active TSS Enhancers Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
5	nsv1058286	chr17:15315763-15561130	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
6	nsv543213	chr17:15315763-15561130	Weak transcription Enhancers Genic enhancers Strong transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
7	nsv960417	chr17:15439978-15441505	Weak transcription Strong transcription	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:97 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:15383400-15455000	Weak transcription	Gastric	stomach
2	chr17:15393400-15451200	Weak transcription	Pancreatic Islets	Pancreatic Islet
3	chr17:15394800-15450800	Weak transcription	Placenta Amnion	Placenta Amnion
4	chr17:15406800-15450600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr17:15416200-15466000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
6	chr17:15417600-15466400	Weak transcription	Ovary	ovary
7	chr17:15418600-15450600	Weak transcription	Brain Angular Gyrus	brain
8	chr17:15418800-15450600	Weak transcription	Brain Cingulate Gyrus	brain
9	chr17:15419600-15442000	Weak transcription	Cortex derived primary cultured neurospheres	brain
10	chr17:15419800-15442400	Weak transcription	Thymus	Thymus
11	chr17:15419800-15448400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
12	chr17:15420000-15441800	Weak transcription	Primary T helper cells fromperipheralblood	blood
13	chr17:15420000-15442000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
14	chr17:15420000-15442000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
15	chr17:15420000-15442000	Weak transcription	A549	lung
16	chr17:15420000-15448400	Weak transcription	Placenta	Placenta
17	chr17:15420000-15450800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
18	chr17:15420200-15442000	Weak transcription	Lung	lung
19	chr17:15420200-15448600	Weak transcription	Duodenum Smooth Muscle	Duodenum
20	chr17:15420400-15442000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
21	chr17:15420400-15442000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
22	chr17:15420400-15442000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
23	chr17:15420400-15452800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
24	chr17:15420600-15441800	Weak transcription	Fetal Brain Female	brain
25	chr17:15420600-15442000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
26	chr17:15420600-15459600	Weak transcription	Primary T helper cells PMA-I stimulated	--
27	chr17:15420800-15442000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr17:15420800-15448200	Weak transcription	H1 Cell Line	embryonic stem cell
29	chr17:15420800-15448400	Weak transcription	Fetal Muscle Leg	muscle
30	chr17:15420800-15448400	Weak transcription	HSMM	muscle
31	chr17:15420800-15450200	Weak transcription	Brain Germinal Matrix	brain
32	chr17:15421200-15450800	Weak transcription	Fetal Kidney	kidney
33	chr17:15421200-15453000	Weak transcription	Aorta	Aorta
34	chr17:15421800-15465600	Weak transcription	Hela-S3	cervix
35	chr17:15422200-15441800	Weak transcription	Fetal Muscle Trunk	muscle
36	chr17:15422400-15441800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
37	chr17:15422400-15441800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
38	chr17:15422400-15442000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
39	chr17:15422400-15447000	Weak transcription	HepG2	liver
40	chr17:15422400-15448400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
41	chr17:15422600-15441600	Weak transcription	HUES6 Cell Line	embryonic stem cell
42	chr17:15422800-15441800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
43	chr17:15422800-15465800	Weak transcription	Fetal Intestine Small	intestine
44	chr17:15423000-15442000	Weak transcription	Fetal Stomach	stomach
45	chr17:15423000-15448400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
46	chr17:15423000-15451000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
47	chr17:15426200-15446600	Weak transcription	HUVEC	blood vessel
48	chr17:15429200-15441800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
49	chr17:15429200-15442400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
50	chr17:15429200-15443000	Weak transcription	Primary hematopoietic stem cells	blood

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