Variant report

Variant	rs9373415
Chromosome Location	chr6:144880548-144880549
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs12661566	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12663647	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12664494	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12664819	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12664837	0.82[ASN][1000 genomes]
rs1534442	0.87[JPT][hapmap]
rs1534443	0.87[JPT][hapmap]
rs1534444	0.86[JPT][hapmap]
rs17073972	0.83[CHB][hapmap];0.91[JPT][hapmap];0.80[ASN][1000 genomes]
rs17073995	0.85[GIH][hapmap];1.00[MEX][hapmap]
rs1918751	1.00[CEU][hapmap];0.95[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1918752	0.95[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.88[TSI][hapmap];0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1997252	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2056744	0.85[GIH][hapmap];0.92[MEX][hapmap]
rs2091486	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2293536	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3811100	1.00[CHB][hapmap];0.91[JPT][hapmap];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4076068	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4896728	0.95[CHB][hapmap];0.80[JPT][hapmap];0.92[ASN][1000 genomes]
rs6906465	0.87[JPT][hapmap]
rs9321980	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9376823	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9376824	1.00[CHB][hapmap];0.98[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.97[ASN][1000 genomes]
rs9376826	0.89[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs9376828	0.91[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs9386070	0.80[AMR][1000 genomes];0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9386071	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9386072	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9386073	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9390170	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.88[GIH][hapmap];1.00[JPT][hapmap];0.85[LWK][hapmap];1.00[MEX][hapmap];0.80[AMR][1000 genomes];0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9390172	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9390174	0.91[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs9390175	0.91[CHB][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.83[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs9390176	0.91[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs9390178	0.91[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs9390184	0.83[JPT][hapmap]
rs9399480	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9399481	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9403563	1.00[CHB][hapmap];1.00[CHD][hapmap];0.92[GIH][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.82[ASN][1000 genomes]
rs9403564	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.88[GIH][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9403567	0.91[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs9403572	0.82[JPT][hapmap]
rs9497003	0.84[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs9497009	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[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	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
2	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
3	nsv1015228	chr6:144780458-144989321	Strong transcription Enhancers ZNF genes & repeats Weak transcription Genic enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv538462	chr6:144780458-144989321	Weak transcription Active TSS Enhancers Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:107 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:144807400-144904000	Weak transcription	Brain Substantia Nigra	brain
2	chr6:144812400-144881000	Weak transcription	Stomach Mucosa	stomach
3	chr6:144815200-144881000	Weak transcription	NHEK	skin
4	chr6:144816600-144881400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
5	chr6:144837200-144880800	Weak transcription	Brain Angular Gyrus	brain
6	chr6:144850400-144903200	Weak transcription	H1 Cell Line	embryonic stem cell
7	chr6:144850400-144903200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
8	chr6:144850400-144904200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr6:144850600-144881600	Weak transcription	Brain Anterior Caudate	brain
10	chr6:144853600-144896400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
11	chr6:144854600-144881200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
12	chr6:144857200-144904000	Weak transcription	Psoas Muscle	Psoas
13	chr6:144858200-144887800	Strong transcription	Primary B cells from peripheral blood	blood
14	chr6:144861200-144885000	Weak transcription	Brain Inferior Temporal Lobe	brain
15	chr6:144864800-144885200	Weak transcription	Colonic Mucosa	Colon
16	chr6:144864800-144885800	Strong transcription	Primary monocytes fromperipheralblood	blood
17	chr6:144864800-144899000	Weak transcription	Small Intestine	intestine
18	chr6:144866200-144881600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
19	chr6:144867400-144903800	Weak transcription	Rectal Smooth Muscle	rectum
20	chr6:144869600-144887000	Strong transcription	Primary hematopoietic stem cells	blood
21	chr6:144869800-144885600	Strong transcription	Adipose Nuclei	Adipose
22	chr6:144870800-144898400	Weak transcription	HUES64 Cell Line	embryonic stem cell
23	chr6:144871200-144880800	Weak transcription	Placenta Amnion	Placenta Amnion
24	chr6:144872000-144881600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
25	chr6:144872000-144903000	Weak transcription	Skeletal Muscle Male	skeletal muscle
26	chr6:144873000-144903200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
27	chr6:144873000-144903800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
28	chr6:144873200-144881000	Weak transcription	NH-A	brain
29	chr6:144874000-144904200	Weak transcription	Placenta	Placenta
30	chr6:144874400-144881400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
31	chr6:144875200-144881000	Weak transcription	H9 Cell Line	embryonic stem cell
32	chr6:144876600-144881000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
33	chr6:144876800-144881200	Weak transcription	HUES6 Cell Line	embryonic stem cell
34	chr6:144877000-144895600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
35	chr6:144877000-144898000	Weak transcription	Right Ventricle	heart
36	chr6:144877000-144898200	Weak transcription	Fetal Intestine Small	intestine
37	chr6:144877000-144903000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
38	chr6:144877000-144904200	Weak transcription	Fetal Stomach	stomach
39	chr6:144877200-144880800	Weak transcription	Osteobl	bone
40	chr6:144878000-144881400	Weak transcription	Aorta	Aorta
41	chr6:144878000-144903400	Weak transcription	Fetal Brain Male	brain
42	chr6:144878400-144880800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
43	chr6:144878400-144880800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
44	chr6:144878400-144881200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
45	chr6:144878400-144881200	Weak transcription	HMEC	breast
46	chr6:144878400-144881400	Weak transcription	Gastric	stomach
47	chr6:144878400-144898000	Weak transcription	Duodenum Mucosa	Duodenum
48	chr6:144878400-144899000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
49	chr6:144878600-144880600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
50	chr6:144878600-144880600	Weak transcription	Primary T killer memory cells from peripheral blood	blood

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