Variant report

Variant	rs11969150
Chromosome Location	chr6:28296053-28296054
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	POLR2A	chr6:28295937-28296062	H1-hESC	embryonic stem cell:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr6:28235190..28237115-chr6:28295999..28298391,2	K562	blood:
2	chr6:28293963..28296628-chr6:28301528..28305497,4	MCF-7	breast:
3	chr6:28277054..28279277-chr6:28294657..28297286,2	K562	blood:

Variant related genes	Relation type
ZSCAN31	TF binding region
ENSG00000235109	Chromatin interaction

Extended variants
information (count: 75 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:74)

rs_ID	r²[population]
rs1015810	0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10946952	0.91[EUR][1000 genomes]
rs1150669	0.91[EUR][1000 genomes]
rs1150671	0.91[EUR][1000 genomes]
rs11965542	0.82[AFR][1000 genomes];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11966042	1.00[EUR][1000 genomes]
rs11966237	0.84[AFR][1000 genomes];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11967622	0.91[EUR][1000 genomes]
rs11970404	0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12333002	0.82[EUR][1000 genomes]
rs1233667	0.91[EUR][1000 genomes]
rs1233698	0.91[EUR][1000 genomes]
rs1233702	0.91[EUR][1000 genomes]
rs2078422	0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs213227	0.92[EUR][1000 genomes]
rs213235	1.00[EUR][1000 genomes]
rs2159274	0.91[EUR][1000 genomes]
rs2232439	0.82[EUR][1000 genomes]
rs2531801	1.00[EUR][1000 genomes]
rs2531802	0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2531812	0.91[EUR][1000 genomes]
rs2531816	0.82[EUR][1000 genomes]
rs2531819	0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2531826	1.00[EUR][1000 genomes]
rs2531828	1.00[EUR][1000 genomes]
rs28366687	0.91[EUR][1000 genomes]
rs28382592	0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2859349	0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2859350	0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2859353	0.82[EUR][1000 genomes]
rs2859354	0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2859359	1.00[EUR][1000 genomes]
rs2859362	1.00[EUR][1000 genomes]
rs2859367	1.00[EUR][1000 genomes]
rs2859371	0.91[EUR][1000 genomes]
rs2859376	0.91[EUR][1000 genomes]
rs2859377	0.91[EUR][1000 genomes]
rs2859378	0.91[EUR][1000 genomes]
rs385908	0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs400987	0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs403774	0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs423118	0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs59457415	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs61540948	0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs62638680	0.80[AFR][1000 genomes];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6908414	0.91[EUR][1000 genomes]
rs6910942	0.91[EUR][1000 genomes]
rs6916243	1.00[EUR][1000 genomes]
rs6924324	0.91[EUR][1000 genomes]
rs6928131	0.91[EUR][1000 genomes]
rs6932313	0.91[EUR][1000 genomes]
rs6932394	0.92[AFR][1000 genomes];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs719370	1.00[EUR][1000 genomes]
rs73385806	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs73385807	0.92[AFR][1000 genomes];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs73385810	0.92[AFR][1000 genomes];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs73385818	0.92[AFR][1000 genomes];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs73385870	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs73387810	1.00[EUR][1000 genomes]
rs73398516	0.91[EUR][1000 genomes]
rs73399084	1.00[EUR][1000 genomes]
rs73400525	0.91[EUR][1000 genomes]
rs73400579	0.91[EUR][1000 genomes]
rs73400580	1.00[EUR][1000 genomes]
rs73400590	1.00[EUR][1000 genomes]
rs73401012	1.00[EUR][1000 genomes]
rs73401666	1.00[EUR][1000 genomes]
rs73402513	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7739389	1.00[EUR][1000 genomes]
rs7759845	1.00[EUR][1000 genomes]
rs9468291	0.91[EUR][1000 genomes]
rs9468293	0.91[EUR][1000 genomes]
rs9468305	0.91[EUR][1000 genomes]
rs9468306	0.91[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	nsv830620	chr6:28173997-28348033	Flanking Active TSS Strong transcription Active TSS Bivalent/Poised TSS Weak transcription ZNF genes & repeats Enhancers Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	51 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:56 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:28288200-28299200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
2	chr6:28290800-28298200	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
3	chr6:28291400-28298000	ZNF genes & repeats	Liver	Liver
4	chr6:28292600-28297200	ZNF genes & repeats	Stomach Smooth Muscle	stomach
5	chr6:28294800-28302000	Weak transcription	HepG2	liver
6	chr6:28294800-28302800	Weak transcription	Placenta Amnion	Placenta Amnion
7	chr6:28295400-28296600	Weak transcription	Fetal Intestine Large	intestine
8	chr6:28295400-28296600	Weak transcription	Fetal Stomach	stomach
9	chr6:28295400-28296600	Weak transcription	Pancreas	Pancrea
10	chr6:28295400-28296800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr6:28295400-28296800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
12	chr6:28295400-28296800	Weak transcription	Esophagus	oesophagus
13	chr6:28295400-28296800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
14	chr6:28295400-28296800	Weak transcription	Gastric	stomach
15	chr6:28295400-28297000	Strong transcription	Fetal Muscle Trunk	muscle
16	chr6:28295400-28301400	Weak transcription	Rectal Smooth Muscle	rectum
17	chr6:28295400-28302400	Weak transcription	Brain Angular Gyrus	brain
18	chr6:28295400-28302800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
19	chr6:28295400-28303000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
20	chr6:28295400-28303000	Weak transcription	Thymus	Thymus
21	chr6:28295600-28296600	Weak transcription	H1 Cell Line	embryonic stem cell
22	chr6:28295600-28296600	Weak transcription	HUES64 Cell Line	embryonic stem cell
23	chr6:28295600-28296600	Weak transcription	Colonic Mucosa	Colon
24	chr6:28295600-28296600	Weak transcription	Colon Smooth Muscle	Colon
25	chr6:28295600-28296600	Weak transcription	Ovary	ovary
26	chr6:28295600-28296600	Weak transcription	Skeletal Muscle Male	skeletal muscle
27	chr6:28295600-28296800	Weak transcription	HUES6 Cell Line	embryonic stem cell
28	chr6:28295600-28296800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
29	chr6:28295600-28296800	Weak transcription	Cortex derived primary cultured neurospheres	brain
30	chr6:28295600-28296800	Weak transcription	Brain Hippocampus Middle	brain
31	chr6:28295600-28296800	Weak transcription	Brain Inferior Temporal Lobe	brain
32	chr6:28295600-28296800	Weak transcription	Psoas Muscle	Psoas
33	chr6:28295600-28296800	Weak transcription	Rectal Mucosa Donor 31	rectum
34	chr6:28295600-28296800	Weak transcription	Right Ventricle	heart
35	chr6:28295600-28296800	Weak transcription	Skeletal Muscle Female	skeletal muscle
36	chr6:28295600-28297000	Weak transcription	Brain Anterior Caudate	brain
37	chr6:28295600-28297000	Weak transcription	Duodenum Mucosa	Duodenum
38	chr6:28295600-28297200	Weak transcription	Fetal Brain Female	brain
39	chr6:28295600-28297800	Weak transcription	K562	blood
40	chr6:28295600-28302000	Weak transcription	Fetal Heart	heart
41	chr6:28295600-28302200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
42	chr6:28295600-28302200	Weak transcription	Hela-S3	cervix
43	chr6:28295600-28302400	Weak transcription	Brain Substantia Nigra	brain
44	chr6:28295600-28302600	Weak transcription	Stomach Mucosa	stomach
45	chr6:28295600-28302800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
46	chr6:28295600-28302800	Weak transcription	Fetal Brain Male	brain
47	chr6:28295800-28296400	Weak transcription	Left Ventricle	heart
48	chr6:28295800-28296600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
49	chr6:28295800-28296600	Weak transcription	Fetal Muscle Leg	muscle
50	chr6:28295800-28296800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived

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