Variant report

Variant	rs6794706
Chromosome Location	chr3:52761213-52761214
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	chr3:52759566..52762334-chr3:52803179..52805863,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000114904	Chromatin interaction

Extended variants
information (count: 125 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:122)

rs_ID	r²[population]
rs10049313	1.00[EUR][1000 genomes]
rs1052728	1.00[EUR][1000 genomes]
rs13066997	1.00[EUR][1000 genomes]
rs17052326	1.00[EUR][1000 genomes]
rs17052421	1.00[EUR][1000 genomes]
rs1986738	1.00[EUR][1000 genomes]
rs1986739	1.00[EUR][1000 genomes]
rs2001733	1.00[EUR][1000 genomes]
rs2001734	1.00[EUR][1000 genomes]
rs2245536	1.00[EUR][1000 genomes]
rs2246888	1.00[EUR][1000 genomes]
rs2246889	1.00[EUR][1000 genomes]
rs2256728	1.00[EUR][1000 genomes]
rs2256734	1.00[EUR][1000 genomes]
rs2276814	1.00[EUR][1000 genomes]
rs2276819	1.00[EUR][1000 genomes]
rs2276821	1.00[EUR][1000 genomes]
rs2336155	1.00[EUR][1000 genomes]
rs2336157	1.00[EUR][1000 genomes]
rs2336158	1.00[EUR][1000 genomes]
rs2336159	1.00[EUR][1000 genomes]
rs2336161	1.00[EUR][1000 genomes]
rs2336556	1.00[EUR][1000 genomes]
rs2336557	1.00[EUR][1000 genomes]
rs2336559	1.00[EUR][1000 genomes]
rs2535615	1.00[EUR][1000 genomes]
rs2535616	1.00[EUR][1000 genomes]
rs2535618	1.00[EUR][1000 genomes]
rs2535619	1.00[EUR][1000 genomes]
rs2535620	1.00[EUR][1000 genomes]
rs2535621	1.00[EUR][1000 genomes]
rs2535622	1.00[EUR][1000 genomes]
rs2535623	1.00[EUR][1000 genomes]
rs2535624	1.00[EUR][1000 genomes]
rs2535626	1.00[EUR][1000 genomes]
rs2535628	1.00[EUR][1000 genomes]
rs2535631	1.00[EUR][1000 genomes]
rs2535632	1.00[EUR][1000 genomes]
rs2535636	1.00[EUR][1000 genomes]
rs2535637	1.00[EUR][1000 genomes]
rs2535638	1.00[EUR][1000 genomes]
rs2535639	1.00[EUR][1000 genomes]
rs2535641	1.00[EUR][1000 genomes]
rs2535642	1.00[EUR][1000 genomes]
rs2535645	1.00[EUR][1000 genomes]
rs2535646	1.00[EUR][1000 genomes]
rs2577828	1.00[EUR][1000 genomes]
rs2577829	1.00[EUR][1000 genomes]
rs2577830	1.00[EUR][1000 genomes]
rs2590840	1.00[EUR][1000 genomes]
rs2590841	1.00[EUR][1000 genomes]
rs2710315	1.00[EUR][1000 genomes]
rs2710316	1.00[EUR][1000 genomes]
rs2710318	1.00[EUR][1000 genomes]
rs2710319	1.00[EUR][1000 genomes]
rs2710320	1.00[EUR][1000 genomes]
rs2710321	1.00[EUR][1000 genomes]
rs2710324	1.00[EUR][1000 genomes]
rs2710325	1.00[EUR][1000 genomes]
rs2710328	1.00[EUR][1000 genomes]
rs2710329	1.00[EUR][1000 genomes]
rs2710336	1.00[EUR][1000 genomes]
rs2710340	1.00[EUR][1000 genomes]
rs2710343	1.00[EUR][1000 genomes]
rs2710344	1.00[EUR][1000 genomes]
rs2878633	1.00[EUR][1000 genomes]
rs2878634	1.00[EUR][1000 genomes]
rs2878635	1.00[EUR][1000 genomes]
rs2878636	1.00[EUR][1000 genomes]
rs3774361	1.00[EUR][1000 genomes]
rs4234635	1.00[EUR][1000 genomes]
rs4234636	1.00[EUR][1000 genomes]
rs4234637	1.00[EUR][1000 genomes]
rs4687555	1.00[EUR][1000 genomes]
rs4687557	1.00[EUR][1000 genomes]
rs4687659	1.00[EUR][1000 genomes]
rs4687661	1.00[EUR][1000 genomes]
rs4687665	1.00[EUR][1000 genomes]
rs4687666	1.00[EUR][1000 genomes]
rs4687667	1.00[EUR][1000 genomes]
rs4687668	1.00[EUR][1000 genomes]
rs4687669	1.00[EUR][1000 genomes]
rs4687670	1.00[EUR][1000 genomes]
rs4687671	1.00[EUR][1000 genomes]
rs4687674	1.00[EUR][1000 genomes]
rs4687675	1.00[EUR][1000 genomes]
rs4687685	1.00[EUR][1000 genomes]
rs4687690	1.00[EUR][1000 genomes]
rs56866386	1.00[EUR][1000 genomes]
rs57430179	1.00[EUR][1000 genomes]
rs59094265	1.00[EUR][1000 genomes]
rs61274383	1.00[EUR][1000 genomes]
rs61641433	1.00[EUR][1000 genomes]
rs6445537	1.00[EUR][1000 genomes]
rs6445540	1.00[EUR][1000 genomes]
rs6445542	1.00[EUR][1000 genomes]
rs6445548	1.00[EUR][1000 genomes]
rs6774869	1.00[EUR][1000 genomes]
rs6776862	1.00[EUR][1000 genomes]
rs6776990	1.00[EUR][1000 genomes]
rs6787916	1.00[EUR][1000 genomes]
rs72947525	1.00[EUR][1000 genomes]
rs72947530	1.00[EUR][1000 genomes]
rs72947531	1.00[EUR][1000 genomes]
rs72947532	1.00[EUR][1000 genomes]
rs72947537	1.00[EUR][1000 genomes]
rs72947557	1.00[EUR][1000 genomes]
rs7623667	1.00[EUR][1000 genomes]
rs7629350	1.00[EUR][1000 genomes]
rs7629528	1.00[EUR][1000 genomes]
rs7637212	1.00[EUR][1000 genomes]
rs7647534	1.00[EUR][1000 genomes]
rs7649515	1.00[EUR][1000 genomes]
rs7650966	1.00[EUR][1000 genomes]
rs7652175	1.00[EUR][1000 genomes]
rs7652476	1.00[EUR][1000 genomes]
rs9681089	1.00[EUR][1000 genomes]
rs9682449	1.00[EUR][1000 genomes]
rs9682819	1.00[EUR][1000 genomes]
rs9815408	1.00[EUR][1000 genomes]
rs9846827	1.00[EUR][1000 genomes]
rs9877711	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv984563	chr3:52516115-52867075	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	63 gene(s)	inside rSNPs	diseases
2	nsv508219	chr3:52741193-52803899	Enhancers Flanking Active TSS Strong transcription Genic enhancers Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
3	nsv834698	chr3:52749983-52928219	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	27 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:111 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:52741400-52765600	Weak transcription	Aorta	Aorta
2	chr3:52741400-52766600	Weak transcription	Rectal Smooth Muscle	rectum
3	chr3:52741600-52764000	Weak transcription	Small Intestine	intestine
4	chr3:52741600-52765600	Weak transcription	Esophagus	oesophagus
5	chr3:52741600-52804000	Weak transcription	Psoas Muscle	Psoas
6	chr3:52742000-52765600	Weak transcription	Brain Cingulate Gyrus	brain
7	chr3:52742000-52766400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
8	chr3:52742000-52766400	Weak transcription	NHLF	lung
9	chr3:52742000-52766600	Weak transcription	Hela-S3	cervix
10	chr3:52742000-52766600	Weak transcription	NHEK	skin
11	chr3:52742200-52767200	Weak transcription	Fetal Brain Male	brain
12	chr3:52742200-52768800	Weak transcription	Colon Smooth Muscle	Colon
13	chr3:52742400-52764200	Weak transcription	Duodenum Smooth Muscle	Duodenum
14	chr3:52742400-52771400	Weak transcription	K562	blood
15	chr3:52742400-52772800	Weak transcription	Pancreas	Pancrea
16	chr3:52742600-52766000	Weak transcription	HUVEC	blood vessel
17	chr3:52743000-52766600	Weak transcription	NH-A	brain
18	chr3:52743000-52766600	Weak transcription	NHDF-Ad	bronchial
19	chr3:52743200-52766600	Weak transcription	Osteobl	bone
20	chr3:52743600-52764200	Weak transcription	Muscle Satellite Cultured Cells	--
21	chr3:52744000-52764200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
22	chr3:52744000-52764200	Weak transcription	Fetal Kidney	kidney
23	chr3:52744000-52765400	Weak transcription	HMEC	breast
24	chr3:52744600-52764200	Weak transcription	Skeletal Muscle Female	skeletal muscle
25	chr3:52744800-52767000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
26	chr3:52746800-52764400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
27	chr3:52747000-52763800	Weak transcription	Left Ventricle	heart
28	chr3:52747000-52765400	Weak transcription	Spleen	Spleen
29	chr3:52747000-52765600	Weak transcription	Brain Anterior Caudate	brain
30	chr3:52747000-52766600	Weak transcription	Brain Hippocampus Middle	brain
31	chr3:52749000-52764800	Weak transcription	Rectal Mucosa Donor 29	rectum
32	chr3:52749000-52771600	Weak transcription	Colonic Mucosa	Colon
33	chr3:52749200-52761400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
34	chr3:52749200-52762000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
35	chr3:52749200-52764400	Weak transcription	Sigmoid Colon	Sigmoid Colon
36	chr3:52749200-52766800	Weak transcription	Right Ventricle	heart
37	chr3:52749200-52767000	Weak transcription	Fetal Heart	heart
38	chr3:52749200-52767400	Weak transcription	Placenta Amnion	Placenta Amnion
39	chr3:52749200-52779800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
40	chr3:52749400-52763800	Weak transcription	HUES64 Cell Line	embryonic stem cell
41	chr3:52749400-52764200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
42	chr3:52749400-52764200	Weak transcription	Duodenum Mucosa	Duodenum
43	chr3:52749400-52764200	Weak transcription	Rectal Mucosa Donor 31	rectum
44	chr3:52749400-52766600	Weak transcription	Gastric	stomach
45	chr3:52749400-52776200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
46	chr3:52749800-52762000	Weak transcription	HUES6 Cell Line	embryonic stem cell
47	chr3:52750000-52762200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
48	chr3:52750000-52763800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
49	chr3:52750000-52765600	Weak transcription	H1 Cell Line	embryonic stem cell
50	chr3:52750000-52765600	Weak transcription	H9 Cell Line	embryonic stem cell

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