Variant report

Variant	rs3800494
Chromosome Location	chr6:64284935-64284936
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	MBD4	chr6:64282937-64285652	HepG2	liver:	n/a	n/a
2	STAT3	chr6:64284895-64285025	MCF10A-Er-Src	breast:	n/a	n/a
3	POLR2A	chr6:64280071-64285528	MCF10A-Er-Src	breast:	n/a	n/a
4	TBP	chr6:64283243-64285825	Hela-S3	cervix:	n/a	n/a
5	HEY1	chr6:64284691-64285019	HepG2	liver:	n/a	n/a
6	POLR2A	chr6:64281143-64285005	GM12878	blood:	n/a	n/a
7	POLR2A	chr6:64279467-64285844	HepG2	liver:	n/a	n/a
8	MBD4	chr6:64282907-64285005	HepG2	liver:	n/a	n/a
9	POLR2A	chr6:64280685-64285889	Hela-S3	cervix:	n/a	n/a
10	POLR2A	chr6:64281152-64285213	Hela-S3	cervix:	n/a	n/a
11	MXI1	chr6:64281338-64285357	SK-N-SH	brain:	n/a	n/a
12	IRF1	chr6:64283341-64284987	K562	blood:	n/a	chr6:64284867-64284884 chr6:64283535-64283549 chr6:64284625-64284634 chr6:64284626-64284635
13	POLR2A	chr6:64281167-64285556	HepG2	liver:	n/a	n/a
14	MYBL2	chr6:64283016-64285202	HepG2	liver:	n/a	n/a
15	TBL1XR1	chr6:64283340-64284956	K562	blood:	n/a	n/a
16	POLR2A	chr6:64281519-64285544	A549	lung:	n/a	n/a
17	POLR2A	chr6:64281079-64285536	IMR90	lung:	n/a	n/a
18	POLR2A	chr6:64281183-64285644	GM12891	blood:	n/a	n/a
19	POLR2A	chr6:64280395-64286526	MCF10A-Er-Src	breast:	n/a	n/a
20	POLR2A	chr6:64281094-64285870	HepG2	liver:	n/a	n/a
21	POLR2A	chr6:64281321-64285356	HCT-116	colon:	n/a	n/a
22	POLR2A	chr6:64281469-64284976	GM12878	blood:	n/a	n/a
23	POLR2A	chr6:64281878-64285831	K562	blood:	n/a	n/a
24	HEY1	chr6:64284677-64285471	HepG2	liver:	n/a	n/a
25	CHD1	chr6:64281687-64285234	H1-hESC	embryonic stem cell:	n/a	chr6:64283784-64283791
26	POLR2A	chr6:64281149-64296791	Hela-S3	cervix:	n/a	n/a
27	BRCA1	chr6:64283342-64285473	Hela-S3	cervix:	n/a	n/a
28	USF2	chr6:64281191-64285151	Hela-S3	cervix:	n/a	chr6:64282922-64282938 chr6:64282293-64282309 chr6:64282948-64282964 chr6:64282236-64282252 chr6:64282890-64282906 chr6:64282279-64282295 chr6:64282237-64282253 chr6:64282231-64282247 chr6:64282019-64282030 chr6:64282239-64282255 chr6:64282410-64282426 chr6:64282920-64282936
29	CHD1	chr6:64280939-64286002	IMR90	lung:	n/a	chr6:64283784-64283791
30	CEBPB	chr6:64283248-64284957	Hela-S3	cervix:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr6:64283629..64285650-chr6:64307693..64310407,3	MCF-7	breast:
2	chr6:64282300..64285121-chr6:64344482..64347606,3	MCF-7	breast:
3	chr6:64281350..64286126-chr6:64342580..64350015,13	K562	blood:
4	chr6:64280920..64286126-chr6:64341540..64349518,16	K562	blood:

Variant related genes	Relation type
ENSG00000266680	TF binding region
ENSG00000118482	Chromatin interaction

Extended variants
information (count: 85 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:85)

rs_ID	r²[population]
rs1062193	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11754293	1.00[JPT][hapmap]
rs11755111	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11756680	0.83[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs11757655	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11759362	1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11759581	0.82[CEU][hapmap];1.00[JPT][hapmap]
rs1197892	1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1210839	0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1681953	1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1681967	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16879705	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16894454	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];0.98[ASN][1000 genomes]
rs16894460	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]
rs16894480	1.00[JPT][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs16894491	0.82[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs16894493	0.82[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1744156	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1744163	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1872288	1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1905595	0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1905597	0.82[CEU][hapmap];1.00[JPT][hapmap]
rs1923521	0.83[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs1923522	0.83[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs2075656	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2622310	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2622313	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28396397	0.83[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs28635226	0.83[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs2881842	1.00[JPT][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs35468218	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs35811627	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3857527	0.83[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs4710434	0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs56950873	0.83[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs56977573	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs57258726	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs57519486	0.96[ASN][1000 genomes]
rs57899418	0.83[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs58016244	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs58173616	0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs58374599	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs58779953	0.83[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs59458355	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs59589817	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs60727297	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs60863270	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs61382532	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs61426335	0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs61580957	0.83[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs6454298	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs66500769	0.83[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs66508463	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs66514362	0.87[EUR][1000 genomes]
rs66559225	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs66618112	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs66648865	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs66683185	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs66769846	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs66924207	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs66943356	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs66984720	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67048845	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs67118169	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs67125777	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67260200	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67549604	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67640372	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs67805256	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs67879075	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs67885904	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6929720	1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6936079	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72880852	0.82[ASN][1000 genomes]
rs72880876	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs72880879	0.83[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs72880884	0.96[ASN][1000 genomes]
rs72882716	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs72882748	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs72882751	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7746492	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7766283	1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7766347	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7767556	0.83[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs9449520	0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:64280400-64285200	Active TSS	Liver	Liver
2	chr6:64281400-64285000	Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr6:64281400-64285000	Active TSS	Colonic Mucosa	Colon
4	chr6:64281400-64285200	Active TSS	ES-I3 Cell Line	embryonic stem cell
5	chr6:64281400-64285400	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
6	chr6:64281400-64285400	Active TSS	Stomach Smooth Muscle	stomach
7	chr6:64281400-64285600	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chr6:64281400-64285800	Active TSS	Fetal Intestine Large	intestine
9	chr6:64281400-64286400	Active TSS	Breast Myoepithelial Primary Cells	Breast
10	chr6:64281600-64285400	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
11	chr6:64281600-64285600	Active TSS	Psoas Muscle	Psoas
12	chr6:64281800-64285000	Active TSS	Stomach Mucosa	stomach
13	chr6:64281800-64285000	Active TSS	HMEC	breast
14	chr6:64281800-64285600	Active TSS	HUES48 Cell Line	embryonic stem cell
15	chr6:64282000-64285000	Active TSS	Muscle Satellite Cultured Cells	--
16	chr6:64282000-64285000	Active TSS	NHDF-Ad	bronchial
17	chr6:64282000-64285200	Active TSS	GM12878-XiMat	blood
18	chr6:64282000-64285400	Active TSS	H1 Cell Line	embryonic stem cell
19	chr6:64282000-64285400	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
20	chr6:64282000-64285400	Active TSS	Duodenum Mucosa	Duodenum
21	chr6:64282200-64285200	Active TSS	Skeletal Muscle Female	skeletal muscle
22	chr6:64282200-64285200	Active TSS	K562	blood
23	chr6:64282200-64285400	Active TSS	Skeletal Muscle Male	skeletal muscle
24	chr6:64283000-64285800	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
25	chr6:64283200-64285000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
26	chr6:64283400-64285000	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
27	chr6:64283600-64285000	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
28	chr6:64283600-64285200	Active TSS	ES-WA7 Cell Line	embryonic stem cell
29	chr6:64283800-64285200	Flanking Active TSS	Dnd41	blood
30	chr6:64283800-64285600	Transcr. at gene 5' and 3'	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
31	chr6:64284000-64285200	Flanking Active TSS	HUVEC	blood vessel
32	chr6:64284000-64285800	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
33	chr6:64284000-64294000	Weak transcription	Spleen	Spleen
34	chr6:64284000-64297200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
35	chr6:64284200-64285000	Enhancers	Primary B cells from peripheral blood	blood
36	chr6:64284200-64285000	Flanking Active TSS	Primary T helper 17 cells PMA-I stimulated	--
37	chr6:64284200-64285000	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
38	chr6:64284200-64285400	Flanking Active TSS	Osteobl	bone
39	chr6:64284200-64285600	Active TSS	HUES6 Cell Line	embryonic stem cell
40	chr6:64284200-64287400	Weak transcription	Pancreas	Pancrea
41	chr6:64284200-64289400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
42	chr6:64284200-64294200	Weak transcription	Gastric	stomach
43	chr6:64284200-64294400	Weak transcription	Lung	lung
44	chr6:64284400-64285000	Enhancers	Primary B cells from cord blood	blood
45	chr6:64284400-64285000	Active TSS	HepG2	liver
46	chr6:64284400-64285000	Transcr. at gene 5' and 3'	HSMM	muscle
47	chr6:64284400-64285200	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell
48	chr6:64284400-64285200	Enhancers	Brain Inferior Temporal Lobe	brain
49	chr6:64284400-64285400	Enhancers	Primary neutrophils fromperipheralblood	blood
50	chr6:64284400-64285400	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--

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