Variant report

Variant	rs7772109
Chromosome Location	chr6:109990819-109990820
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 56 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs1096136	0.94[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1096138	0.97[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11753828	0.82[EUR][1000 genomes]
rs11754263	0.83[EUR][1000 genomes]
rs12200787	0.87[EUR][1000 genomes]
rs17540056	0.82[EUR][1000 genomes]
rs1925921	0.82[EUR][1000 genomes]
rs2064822	0.83[EUR][1000 genomes]
rs2357127	0.87[EUR][1000 genomes]
rs4296926	0.81[EUR][1000 genomes]
rs4946982	0.82[EUR][1000 genomes]
rs4946995	0.88[EUR][1000 genomes]
rs4946997	0.89[EUR][1000 genomes]
rs4946998	0.89[EUR][1000 genomes]
rs4947004	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4947006	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs56125306	0.86[EUR][1000 genomes]
rs56264193	0.85[EUR][1000 genomes]
rs62437563	0.82[EUR][1000 genomes]
rs6568579	0.82[EUR][1000 genomes]
rs6568582	0.82[EUR][1000 genomes]
rs6568583	0.87[EUR][1000 genomes]
rs6568591	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6568601	0.82[EUR][1000 genomes]
rs6900133	0.83[EUR][1000 genomes]
rs6900187	0.80[EUR][1000 genomes]
rs6911851	0.81[EUR][1000 genomes]
rs6912368	0.81[EUR][1000 genomes]
rs6917300	0.83[EUR][1000 genomes]
rs6921303	0.87[EUR][1000 genomes]
rs6924436	0.83[EUR][1000 genomes]
rs6925886	0.83[EUR][1000 genomes]
rs6931630	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6932774	0.87[EUR][1000 genomes]
rs6938741	0.82[EUR][1000 genomes]
rs6942171	0.82[EUR][1000 genomes]
rs7771729	0.82[EUR][1000 genomes]
rs7775420	0.83[EUR][1000 genomes]
rs829817	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs911022	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs911023	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9320290	0.82[EUR][1000 genomes]
rs9320300	0.84[EUR][1000 genomes]
rs9372220	0.88[EUR][1000 genomes]
rs9374096	0.83[EUR][1000 genomes]
rs9386814	0.83[EUR][1000 genomes]
rs9400289	0.82[EUR][1000 genomes]
rs9400300	0.84[EUR][1000 genomes]
rs9968792	0.84[AMR][1000 genomes];0.89[EUR][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	nsv1026012	chr6:109851638-109999379	Weak transcription Enhancers Genic enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
2	nsv604484	chr6:109851937-109997529	ZNF genes & repeats Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
3	nsv949475	chr6:109907936-110160501	Weak transcription Enhancers ZNF genes & repeats Active TSS Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv933105	chr6:109933270-110064342	ZNF genes & repeats Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS Enhancers Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
5	nsv817322	chr6:109933272-110070574	Strong transcription Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
6	nsv830769	chr6:109944334-110078120	Enhancers Strong transcription Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
7	nsv604485	chr6:109959269-110054486	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:43 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:109948000-109995000	Weak transcription	Brain Anterior Caudate	brain
2	chr6:109954400-109994800	Weak transcription	Brain Hippocampus Middle	brain
3	chr6:109961400-110000800	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr6:109961600-110000600	Weak transcription	Thymus	Thymus
5	chr6:109965200-109992200	Weak transcription	Fetal Brain Female	brain
6	chr6:109965200-110000600	Weak transcription	Duodenum Smooth Muscle	Duodenum
7	chr6:109966800-109991000	Weak transcription	Ovary	ovary
8	chr6:109966800-109993200	Weak transcription	Adipose Nuclei	Adipose
9	chr6:109967200-109992600	Weak transcription	Left Ventricle	heart
10	chr6:109967800-109997000	Weak transcription	Stomach Smooth Muscle	stomach
11	chr6:109972400-109992200	Weak transcription	Liver	Liver
12	chr6:109974200-109992400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
13	chr6:109976000-109992800	Weak transcription	Rectal Mucosa Donor 29	rectum
14	chr6:109978000-110010600	Weak transcription	Brain Germinal Matrix	brain
15	chr6:109978400-109991200	Weak transcription	Primary T helper cells fromperipheralblood	blood
16	chr6:109978600-109991000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
17	chr6:109979600-109992600	Weak transcription	HSMMtube	muscle
18	chr6:109979600-110000600	Weak transcription	Primary T helper cells PMA-I stimulated	--
19	chr6:109980200-109999800	Weak transcription	Pancreas	Pancrea
20	chr6:109980600-109998600	Weak transcription	Primary hematopoietic stem cells	blood
21	chr6:109980600-110011200	Weak transcription	Fetal Thymus	thymus
22	chr6:109981200-109992600	Weak transcription	Primary B cells from peripheral blood	blood
23	chr6:109982600-109992800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
24	chr6:109983600-110000800	Weak transcription	Skeletal Muscle Female	skeletal muscle
25	chr6:109984200-109992600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
26	chr6:109985200-110000800	Weak transcription	Spleen	Spleen
27	chr6:109985800-109991000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
28	chr6:109986800-109994600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
29	chr6:109987200-109998400	Weak transcription	Aorta	Aorta
30	chr6:109988200-109998600	Weak transcription	Fetal Heart	heart
31	chr6:109988600-109998000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
32	chr6:109989200-109995400	Weak transcription	Fetal Stomach	stomach
33	chr6:109989200-109998200	Weak transcription	Small Intestine	intestine
34	chr6:109989400-109997600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
35	chr6:109989400-110011400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
36	chr6:109989600-109994200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
37	chr6:109990000-110010600	Weak transcription	Fetal Intestine Small	intestine
38	chr6:109990800-109991000	ZNF genes & repeats	Primary T cells from cord blood	blood
39	chr6:109990800-109991000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
40	chr6:109990800-109991400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
41	chr6:109990800-109991600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
42	chr6:109990800-109992000	Strong transcription	Primary B cells from cord blood	blood
43	chr6:109990800-109995000	Enhancers	HUVEC	blood vessel

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