Variant report

Variant	rs16863223
Chromosome Location	chr3:150901029-150901030
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs10513385	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10513386	0.86[CHB][hapmap];0.92[JPT][hapmap];0.90[YRI][hapmap];0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12631155	0.83[YRI][hapmap];0.81[AFR][1000 genomes]
rs12636713	0.86[CHB][hapmap];0.92[JPT][hapmap];0.91[YRI][hapmap];0.94[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1431494	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1431495	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1431496	0.86[CHB][hapmap];0.93[JPT][hapmap];0.95[YRI][hapmap];0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16863155	0.83[EUR][1000 genomes]
rs16863204	0.83[YRI][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16863208	0.86[CHB][hapmap];0.92[JPT][hapmap];0.94[YRI][hapmap];0.88[AFR][1000 genomes];0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs16863227	0.81[YRI][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs16863229	0.86[CHB][hapmap];0.92[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16863238	0.86[CHB][hapmap];0.92[JPT][hapmap]
rs16863248	0.83[YRI][hapmap];0.81[AFR][1000 genomes]
rs2043170	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2870413	0.83[YRI][hapmap];0.82[AFR][1000 genomes]
rs2870414	0.82[AFR][1000 genomes]
rs2870415	0.83[YRI][hapmap];0.81[AFR][1000 genomes]
rs3732755	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.84[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3773614	0.83[YRI][hapmap];0.82[AFR][1000 genomes]
rs4330297	0.86[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs56151283	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs56350229	1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs59669423	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs60749276	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs61099669	0.81[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6440723	0.83[YRI][hapmap];0.81[AFR][1000 genomes]
rs66725169	0.82[AFR][1000 genomes]
rs6772538	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6772543	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs67740545	0.82[AFR][1000 genomes]
rs6775269	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6790349	0.81[AFR][1000 genomes]
rs6802229	0.86[CHB][hapmap];0.92[JPT][hapmap];0.91[YRI][hapmap];0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73016801	0.87[AFR][1000 genomes];0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs73018604	0.94[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73018614	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73018621	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73018622	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73018628	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73018640	0.85[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs73018641	0.85[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs73019085	0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73019091	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73021129	0.81[AFR][1000 genomes]
rs7615523	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7616375	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.94[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7650189	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7650499	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7650959	0.86[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9917673	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv460894	chr3:150770614-151095093	Enhancers Flanking Bivalent TSS/Enh Weak transcription Strong transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	nsv592045	chr3:150770614-151095093	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	esv2757897	chr3:150791625-150957485	ZNF genes & repeats Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	esv2759188	chr3:150791625-150957485	Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:58 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:150872800-150910800	Weak transcription	Brain Germinal Matrix	brain
2	chr3:150873200-150910200	Weak transcription	Brain Angular Gyrus	brain
3	chr3:150873800-150913800	Weak transcription	Brain Inferior Temporal Lobe	brain
4	chr3:150878000-150946000	Weak transcription	Placenta	Placenta
5	chr3:150884200-150906600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
6	chr3:150889000-150904000	Weak transcription	HUES48 Cell Line	embryonic stem cell
7	chr3:150889200-150908200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chr3:150889200-150914800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr3:150889400-150903600	Weak transcription	Cortex derived primary cultured neurospheres	brain
10	chr3:150889600-150904000	Weak transcription	Brain Anterior Caudate	brain
11	chr3:150889600-150913800	Weak transcription	Fetal Muscle Leg	muscle
12	chr3:150890600-150923400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
13	chr3:150892400-150904200	Weak transcription	Primary hematopoietic stem cells	blood
14	chr3:150894000-150904200	Weak transcription	HUES64 Cell Line	embryonic stem cell
15	chr3:150896200-150927800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
16	chr3:150896400-150904400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
17	chr3:150896600-150918200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
18	chr3:150897200-150916200	Weak transcription	Fetal Intestine Small	intestine
19	chr3:150897600-150913800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
20	chr3:150898600-150917200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
21	chr3:150899000-150917000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
22	chr3:150899400-150901400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
23	chr3:150899600-150902600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
24	chr3:150900000-150901400	Enhancers	Fetal Lung	lung
25	chr3:150900200-150901200	Enhancers	Fetal Thymus	thymus
26	chr3:150900200-150901400	Enhancers	Primary T cells fromperipheralblood	blood
27	chr3:150900200-150901400	Enhancers	Psoas Muscle	Psoas
28	chr3:150900200-150901600	Enhancers	HepG2	liver
29	chr3:150900200-150902400	Enhancers	Primary T helper naive cells from peripheral blood	blood
30	chr3:150900400-150901200	Enhancers	Primary T regulatory cells fromperipheralblood	blood
31	chr3:150900400-150901400	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
32	chr3:150900400-150901400	Enhancers	Fetal Heart	heart
33	chr3:150900400-150902200	Enhancers	Primary T helper cells fromperipheralblood	blood
34	chr3:150900400-150902200	Enhancers	Primary T killer memory cells from peripheral blood	blood
35	chr3:150900400-150910200	Weak transcription	Fetal Brain Female	brain
36	chr3:150900400-150917200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
37	chr3:150900600-150901200	Weak transcription	Primary neutrophils fromperipheralblood	blood
38	chr3:150900600-150901400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
39	chr3:150900600-150902200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
40	chr3:150900600-150904200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
41	chr3:150900600-150904200	Weak transcription	Brain Cingulate Gyrus	brain
42	chr3:150900600-150908400	Weak transcription	HUES6 Cell Line	embryonic stem cell
43	chr3:150900600-150917000	Weak transcription	H9 Cell Line	embryonic stem cell
44	chr3:150900800-150901200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
45	chr3:150900800-150901200	Weak transcription	Aorta	Aorta
46	chr3:150900800-150917200	Weak transcription	H1 Cell Line	embryonic stem cell
47	chr3:150901000-150901200	Enhancers	iPS-15b Cell Line	embryonic stem cell
48	chr3:150901000-150901200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
49	chr3:150901000-150901200	Enhancers	Thymus	Thymus
50	chr3:150901000-150901400	Enhancers	Primary monocytes fromperipheralblood	blood

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