Variant report

Variant	rs3777769
Chromosome Location	chr6:12137737-12137738
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:12010023..12013574-chr6:12135767..12138101,3	K562	blood:

Variant related genes	Relation type
ENSG00000095951	Chromatin interaction

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs10498679	0.88[CEU][hapmap]
rs1126472	0.86[JPT][hapmap]
rs12176308	0.88[CEU][hapmap]
rs16872277	0.96[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2228220	0.86[JPT][hapmap]
rs3734271	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.98[ASN][1000 genomes]
rs3777754	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3777758	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3777762	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3777770	0.88[JPT][hapmap]
rs3777771	0.88[JPT][hapmap]
rs3777773	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3822926	1.00[CEU][hapmap];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]
rs55718117	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6905883	0.92[YRI][hapmap]
rs6907440	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6910959	0.88[CEU][hapmap]
rs6916455	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6928420	1.00[CEU][hapmap];0.85[YRI][hapmap];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6940075	1.00[CEU][hapmap];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72826076	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72826081	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs72826086	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72826088	0.81[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72826091	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7751398	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9296253	0.86[CEU][hapmap]
rs9296262	1.00[CEU][hapmap];0.85[CHB][hapmap]
rs9349095	0.88[CEU][hapmap]
rs9357278	1.00[CEU][hapmap]
rs9366970	0.88[CEU][hapmap]
rs9366972	0.88[CEU][hapmap]
rs9366980	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9369070	0.88[CEU][hapmap]
rs9369072	0.88[CEU][hapmap]
rs9369074	1.00[CEU][hapmap];0.85[YRI][hapmap];0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9369101	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9369106	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9380764	0.88[CEU][hapmap]
rs9380837	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9394517	0.88[CEU][hapmap]
rs9394520	0.88[CEU][hapmap]
rs9394526	1.00[CEU][hapmap]
rs9394540	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9394541	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][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:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:12118400-12138400	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr6:12119800-12138800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
3	chr6:12121400-12150200	Weak transcription	Fetal Brain Male	brain
4	chr6:12122000-12138200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
5	chr6:12122200-12137800	Weak transcription	HMEC	breast
6	chr6:12122200-12138600	Weak transcription	Colonic Mucosa	Colon
7	chr6:12122200-12138600	Weak transcription	Placenta Amnion	Placenta Amnion
8	chr6:12122200-12138600	Weak transcription	Rectal Mucosa Donor 31	rectum
9	chr6:12122200-12138800	Weak transcription	Ovary	ovary
10	chr6:12122200-12138800	Weak transcription	Stomach Smooth Muscle	stomach
11	chr6:12122200-12139000	Weak transcription	Spleen	Spleen
12	chr6:12122200-12139200	Weak transcription	Cortex derived primary cultured neurospheres	brain
13	chr6:12122200-12161800	Weak transcription	Rectal Smooth Muscle	rectum
14	chr6:12122400-12138200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
15	chr6:12122400-12138600	Weak transcription	Lung	lung
16	chr6:12122400-12139200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr6:12122400-12139200	Weak transcription	Placenta	Placenta
18	chr6:12122400-12139800	Weak transcription	Esophagus	oesophagus
19	chr6:12122600-12138200	Weak transcription	Primary B cells from cord blood	blood
20	chr6:12122600-12139000	Weak transcription	Duodenum Smooth Muscle	Duodenum
21	chr6:12122800-12137800	Weak transcription	Skeletal Muscle Male	skeletal muscle
22	chr6:12122800-12138400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
23	chr6:12122800-12138600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
24	chr6:12122800-12138600	Weak transcription	Gastric	stomach
25	chr6:12122800-12138600	Weak transcription	Rectal Mucosa Donor 29	rectum
26	chr6:12122800-12138600	Weak transcription	Sigmoid Colon	Sigmoid Colon
27	chr6:12122800-12138800	Weak transcription	Fetal Kidney	kidney
28	chr6:12122800-12138800	Weak transcription	Right Ventricle	heart
29	chr6:12122800-12139400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
30	chr6:12122800-12142800	Weak transcription	Skeletal Muscle Female	skeletal muscle
31	chr6:12123000-12138600	Weak transcription	H9 Cell Line	embryonic stem cell
32	chr6:12123400-12138600	Weak transcription	Duodenum Mucosa	Duodenum
33	chr6:12123600-12138200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
34	chr6:12124400-12138600	Weak transcription	Brain Germinal Matrix	brain
35	chr6:12124400-12139600	Weak transcription	Fetal Brain Female	brain
36	chr6:12125000-12138600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
37	chr6:12125000-12138600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
38	chr6:12125000-12138800	Weak transcription	Thymus	Thymus
39	chr6:12126000-12137800	Weak transcription	HepG2	liver
40	chr6:12126000-12138200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
41	chr6:12126200-12137800	Weak transcription	H1 Cell Line	embryonic stem cell
42	chr6:12126600-12138200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
43	chr6:12127200-12138200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
44	chr6:12127400-12138200	Weak transcription	Primary T cells fromperipheralblood	blood
45	chr6:12127800-12137800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
46	chr6:12127800-12137800	Weak transcription	Primary T helper cells PMA-I stimulated	--
47	chr6:12128000-12137800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
48	chr6:12128000-12137800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
49	chr6:12128000-12138000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
50	chr6:12128600-12148400	Weak transcription	Fetal Heart	heart

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