Variant report

Variant	rs3777767
Chromosome Location	chr6:12148534-12148535
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:12148334..12149885-chr6:12606136..12608631,2	K562	blood:
2	chr6:12147366..12153185-chr6:12287040..12292866,9	MCF-7	breast:
3	chr6:12009134..12010743-chr6:12145646..12148619,2	MCF-7	breast:
4	chr6:12147801..12150014-chr6:12151950..12154002,2	MCF-7	breast:
5	chr6:12147382..12151716-chr6:12286140..12292152,6	MCF-7	breast:
6	chr6:12147758..12151335-chr6:12153280..12156085,3	K562	blood:

Variant related genes	Relation type
ENSG00000078401	Chromatin interaction

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs12662314	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12663812	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12664121	0.84[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs12664849	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16872348	0.90[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs2157492	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2228211	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2327512	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs28769650	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3777756	0.88[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs3777757	0.97[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3777764	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3777772	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3777774	0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3777777	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3800499	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4317394	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4443504	0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4484521	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4714187	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs55637995	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs60122380	0.80[AMR][1000 genomes]
rs6910367	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6917623	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6931770	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72828103	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72828104	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72828110	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7449638	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7741589	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7747677	0.84[ASN][1000 genomes]
rs9380769	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830586	chr6:12130076-12295334	Flanking Active TSS Weak transcription Strong transcription Enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:104 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:12121400-12150200	Weak transcription	Fetal Brain Male	brain
2	chr6:12122200-12161800	Weak transcription	Rectal Smooth Muscle	rectum
3	chr6:12134800-12149600	Weak transcription	Brain Angular Gyrus	brain
4	chr6:12137000-12163600	Weak transcription	Small Intestine	intestine
5	chr6:12139000-12154200	Weak transcription	Right Atrium	heart
6	chr6:12139000-12161600	Weak transcription	HepG2	liver
7	chr6:12139800-12149800	Weak transcription	Colon Smooth Muscle	Colon
8	chr6:12140000-12154600	Weak transcription	Right Ventricle	heart
9	chr6:12140200-12161800	Weak transcription	H9 Cell Line	embryonic stem cell
10	chr6:12140400-12149800	Weak transcription	Brain Germinal Matrix	brain
11	chr6:12140400-12150200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
12	chr6:12140600-12149800	Weak transcription	Brain Cingulate Gyrus	brain
13	chr6:12140600-12149800	Weak transcription	Ovary	ovary
14	chr6:12140600-12151400	Weak transcription	Rectal Mucosa Donor 29	rectum
15	chr6:12140600-12155400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr6:12140600-12158400	Weak transcription	Aorta	Aorta
17	chr6:12140600-12158600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
18	chr6:12140600-12158800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
19	chr6:12140600-12161400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
20	chr6:12140600-12161400	Weak transcription	Pancreas	Pancrea
21	chr6:12140600-12161400	Weak transcription	Sigmoid Colon	Sigmoid Colon
22	chr6:12140600-12161400	Weak transcription	Spleen	Spleen
23	chr6:12140600-12161600	Weak transcription	Esophagus	oesophagus
24	chr6:12140600-12161800	Weak transcription	Gastric	stomach
25	chr6:12140600-12163600	Weak transcription	Primary hematopoietic stem cells	blood
26	chr6:12140600-12163600	Weak transcription	Psoas Muscle	Psoas
27	chr6:12140600-12163800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
28	chr6:12140800-12149400	Weak transcription	Primary T helper cells fromperipheralblood	blood
29	chr6:12140800-12152400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr6:12140800-12152400	Weak transcription	Placenta Amnion	Placenta Amnion
31	chr6:12140800-12152600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
32	chr6:12140800-12154600	Weak transcription	Liver	Liver
33	chr6:12140800-12155400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
34	chr6:12140800-12156200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
35	chr6:12140800-12158600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
36	chr6:12140800-12158800	Weak transcription	Fetal Stomach	stomach
37	chr6:12140800-12160400	Weak transcription	Primary B cells from cord blood	blood
38	chr6:12140800-12160400	Weak transcription	Primary T cells fromperipheralblood	blood
39	chr6:12140800-12160600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
40	chr6:12140800-12161000	Weak transcription	Adipose Nuclei	Adipose
41	chr6:12140800-12161400	Weak transcription	Thymus	Thymus
42	chr6:12140800-12161600	Weak transcription	Primary B cells from peripheral blood	blood
43	chr6:12140800-12161600	Weak transcription	Duodenum Smooth Muscle	Duodenum
44	chr6:12140800-12161800	Weak transcription	HUES6 Cell Line	embryonic stem cell
45	chr6:12140800-12161800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
46	chr6:12140800-12161800	Weak transcription	Primary T helper cells PMA-I stimulated	--
47	chr6:12140800-12162800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
48	chr6:12141000-12151400	Weak transcription	Duodenum Mucosa	Duodenum
49	chr6:12141000-12155400	Weak transcription	Fetal Intestine Small	intestine
50	chr6:12141000-12158600	Weak transcription	Fetal Kidney	kidney

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