Variant report

Variant	rs3777774
Chromosome Location	chr6:12134765-12134766
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:12125121..12130704-chr6:12130846..12136082,9	K562	blood:

Variant related genes	Relation type
ENSG00000095951	Chromatin interaction

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs12662314	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12663812	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12664121	0.83[AMR][1000 genomes]
rs12664849	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs16872348	0.81[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs2157492	0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2228211	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2327512	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28769650	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3777756	0.87[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs3777757	0.96[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3777764	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3777767	0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3777772	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3777777	0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3800499	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4317394	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4443504	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4484521	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4714187	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs55637995	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6910367	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6917623	0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6931770	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs72828103	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs72828104	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs72828110	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7449638	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7741589	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7747677	0.82[CHB][hapmap];0.95[JPT][hapmap];0.83[ASN][1000 genomes]
rs9380769	0.94[CEU][hapmap];0.89[AMR][1000 genomes];0.88[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:115 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:12117200-12136800	Weak transcription	Brain Cingulate Gyrus	brain
2	chr6:12118400-12138400	Weak transcription	Pancreatic Islets	Pancreatic Islet
3	chr6:12119800-12138800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
4	chr6:12121400-12150200	Weak transcription	Fetal Brain Male	brain
5	chr6:12121600-12136800	Weak transcription	Hela-S3	cervix
6	chr6:12122000-12136600	Weak transcription	Osteobl	bone
7	chr6:12122000-12138200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
8	chr6:12122200-12137600	Weak transcription	Brain Anterior Caudate	brain
9	chr6:12122200-12137600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
10	chr6:12122200-12137600	Weak transcription	Brain Substantia Nigra	brain
11	chr6:12122200-12137800	Weak transcription	HMEC	breast
12	chr6:12122200-12138600	Weak transcription	Colonic Mucosa	Colon
13	chr6:12122200-12138600	Weak transcription	Placenta Amnion	Placenta Amnion
14	chr6:12122200-12138600	Weak transcription	Rectal Mucosa Donor 31	rectum
15	chr6:12122200-12138800	Weak transcription	Ovary	ovary
16	chr6:12122200-12138800	Weak transcription	Stomach Smooth Muscle	stomach
17	chr6:12122200-12139000	Weak transcription	Spleen	Spleen
18	chr6:12122200-12139200	Weak transcription	Cortex derived primary cultured neurospheres	brain
19	chr6:12122200-12161800	Weak transcription	Rectal Smooth Muscle	rectum
20	chr6:12122400-12136400	Weak transcription	Small Intestine	intestine
21	chr6:12122400-12138200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
22	chr6:12122400-12138600	Weak transcription	Lung	lung
23	chr6:12122400-12139200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr6:12122400-12139200	Weak transcription	Placenta	Placenta
25	chr6:12122400-12139800	Weak transcription	Esophagus	oesophagus
26	chr6:12122600-12136000	Weak transcription	Fetal Lung	lung
27	chr6:12122600-12138200	Weak transcription	Primary B cells from cord blood	blood
28	chr6:12122600-12139000	Weak transcription	Duodenum Smooth Muscle	Duodenum
29	chr6:12122800-12137200	Weak transcription	NHDF-Ad	bronchial
30	chr6:12122800-12137800	Weak transcription	Skeletal Muscle Male	skeletal muscle
31	chr6:12122800-12138400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
32	chr6:12122800-12138600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
33	chr6:12122800-12138600	Weak transcription	Gastric	stomach
34	chr6:12122800-12138600	Weak transcription	Rectal Mucosa Donor 29	rectum
35	chr6:12122800-12138600	Weak transcription	Sigmoid Colon	Sigmoid Colon
36	chr6:12122800-12138800	Weak transcription	Fetal Kidney	kidney
37	chr6:12122800-12138800	Weak transcription	Right Ventricle	heart
38	chr6:12122800-12139400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
39	chr6:12122800-12142800	Weak transcription	Skeletal Muscle Female	skeletal muscle
40	chr6:12123000-12138600	Weak transcription	H9 Cell Line	embryonic stem cell
41	chr6:12123400-12138600	Weak transcription	Duodenum Mucosa	Duodenum
42	chr6:12123600-12138200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
43	chr6:12124400-12138600	Weak transcription	Brain Germinal Matrix	brain
44	chr6:12124400-12139600	Weak transcription	Fetal Brain Female	brain
45	chr6:12124800-12136600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
46	chr6:12125000-12136400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
47	chr6:12125000-12136400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
48	chr6:12125000-12138600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
49	chr6:12125000-12138600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
50	chr6:12125000-12138800	Weak transcription	Thymus	Thymus

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