Variant report

Variant	rs9496925
Chromosome Location	chr6:144639317-144639318
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

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

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs11962764	0.91[JPT][hapmap];0.80[ASN][1000 genomes]
rs12662696	0.94[JPT][hapmap]
rs12662872	0.94[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs12662914	0.94[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs12664304	0.94[JPT][hapmap]
rs1474630	0.80[CHB][hapmap];0.93[JPT][hapmap];0.82[ASN][1000 genomes]
rs17073571	0.87[JPT][hapmap]
rs17073578	0.93[JPT][hapmap];0.80[ASN][1000 genomes]
rs17073580	0.87[JPT][hapmap]
rs17073596	0.80[CHB][hapmap];0.93[JPT][hapmap];0.82[ASN][1000 genomes]
rs17073598	0.80[CHB][hapmap];0.93[JPT][hapmap];0.84[ASN][1000 genomes]
rs17073602	0.82[CHB][hapmap];0.94[JPT][hapmap];0.84[ASN][1000 genomes]
rs17073610	0.94[JPT][hapmap]
rs17073623	0.93[JPT][hapmap]
rs17073629	0.86[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs17073631	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs17073678	0.94[JPT][hapmap]
rs35325795	0.96[AMR][1000 genomes]
rs59718967	0.96[ASN][1000 genomes]
rs59803839	0.91[ASN][1000 genomes]
rs60661533	0.94[ASN][1000 genomes]
rs60857439	0.96[ASN][1000 genomes]
rs60859726	0.82[ASN][1000 genomes]
rs6570619	0.83[AMR][1000 genomes]
rs6903169	0.94[JPT][hapmap];0.87[YRI][hapmap];0.83[AFR][1000 genomes];0.80[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6903993	0.84[AMR][1000 genomes]
rs6911171	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6916795	0.93[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6917261	0.96[AMR][1000 genomes]
rs6919115	0.94[CHB][hapmap];1.00[JPT][hapmap];0.97[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6922109	0.96[AMR][1000 genomes]
rs6922608	0.96[AMR][1000 genomes]
rs6924797	0.94[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6927798	0.93[JPT][hapmap];0.96[AMR][1000 genomes]
rs6941296	0.93[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73588920	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73589002	0.96[ASN][1000 genomes]
rs73591113	0.96[ASN][1000 genomes]
rs73594936	0.84[AMR][1000 genomes]
rs73594937	0.84[AMR][1000 genomes]
rs73780508	0.84[ASN][1000 genomes]
rs73780544	0.84[AMR][1000 genomes]
rs7741466	0.87[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs7743190	0.84[AMR][1000 genomes]
rs7745998	0.93[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7751351	1.00[AMR][1000 genomes]
rs7761280	0.84[AMR][1000 genomes]
rs7768531	0.93[JPT][hapmap]
rs9321968	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9321969	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9496928	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9496930	0.94[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9496932	0.96[AMR][1000 genomes]
rs9496935	0.96[AMR][1000 genomes]
rs9496938	0.96[AMR][1000 genomes]
rs9496944	0.83[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830831	chr6:144501371-144649509	Bivalent/Poised TSS Weak transcription Genic enhancers Enhancers Flanking Active TSS Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv830832	chr6:144572378-144759023	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	esv2422260	chr6:144574591-144731630	Weak transcription Flanking Active TSS ZNF genes & repeats Enhancers Active TSS Genic enhancers Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv1031253	chr6:144599055-144883013	Weak transcription Strong transcription Genic enhancers Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
5	nsv538461	chr6:144599055-144883013	Weak transcription Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Enhancers Genic enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:79 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:144609200-144641600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr6:144616400-144648000	Weak transcription	NHEK	skin
3	chr6:144624200-144641400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr6:144624200-144641600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr6:144624400-144648000	Weak transcription	HMEC	breast
6	chr6:144627400-144641800	Weak transcription	Thymus	Thymus
7	chr6:144627600-144643400	Weak transcription	NH-A	brain
8	chr6:144627600-144645800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
9	chr6:144629400-144641800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
10	chr6:144630200-144648400	Weak transcription	Placenta Amnion	Placenta Amnion
11	chr6:144630600-144648200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr6:144631600-144640200	Weak transcription	Monocytes-CD14+_RO01746	blood
13	chr6:144631600-144641600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
14	chr6:144632800-144641000	Weak transcription	HUES6 Cell Line	embryonic stem cell
15	chr6:144633000-144641600	Weak transcription	HUES48 Cell Line	embryonic stem cell
16	chr6:144633000-144641800	Weak transcription	HSMM	muscle
17	chr6:144634000-144639400	Enhancers	Fetal Kidney	kidney
18	chr6:144634200-144639400	Enhancers	HUVEC	blood vessel
19	chr6:144634200-144640800	Enhancers	NHDF-Ad	bronchial
20	chr6:144634400-144639400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
21	chr6:144634400-144640000	Weak transcription	Primary monocytes fromperipheralblood	blood
22	chr6:144634800-144640400	Weak transcription	Duodenum Mucosa	Duodenum
23	chr6:144634800-144645000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
24	chr6:144635000-144651000	Weak transcription	Small Intestine	intestine
25	chr6:144635600-144641800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
26	chr6:144635600-144643000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
27	chr6:144635600-144650800	Weak transcription	Aorta	Aorta
28	chr6:144636000-144641800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
29	chr6:144636000-144656200	Weak transcription	Duodenum Smooth Muscle	Duodenum
30	chr6:144636400-144641600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
31	chr6:144636400-144642200	Enhancers	Osteobl	bone
32	chr6:144636600-144640400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
33	chr6:144636600-144642200	Weak transcription	Cortex derived primary cultured neurospheres	brain
34	chr6:144636600-144648000	Weak transcription	Brain Anterior Caudate	brain
35	chr6:144636600-144654800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
36	chr6:144636800-144650800	Weak transcription	Stomach Smooth Muscle	stomach
37	chr6:144636800-144654800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
38	chr6:144636800-144656400	Weak transcription	Brain Substantia Nigra	brain
39	chr6:144637000-144641600	Weak transcription	HSMMtube	muscle
40	chr6:144637000-144642400	Weak transcription	Brain Angular Gyrus	brain
41	chr6:144637000-144643000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
42	chr6:144637000-144647600	Weak transcription	Fetal Muscle Leg	muscle
43	chr6:144637000-144651800	Weak transcription	Rectal Mucosa Donor 29	rectum
44	chr6:144637200-144640400	Weak transcription	Adipose Nuclei	Adipose
45	chr6:144637200-144641000	Weak transcription	Liver	Liver
46	chr6:144637200-144642000	Weak transcription	Spleen	Spleen
47	chr6:144637200-144647800	Weak transcription	Left Ventricle	heart
48	chr6:144637200-144647800	Weak transcription	Right Atrium	heart
49	chr6:144637200-144648000	Weak transcription	Psoas Muscle	Psoas
50	chr6:144637400-144640600	Weak transcription	Lung	lung

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