Variant report

Variant	rs9461452
Chromosome Location	chr6:28295750-28295751
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	chr6:28293963..28296628-chr6:28301528..28305497,4	MCF-7	breast:
2	chr6:28277054..28279277-chr6:28294657..28297286,2	K562	blood:

Variant related genes	Relation type
ENSG00000235109	Chromatin interaction

Extended variants
information (count: 50 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs10080420	0.80[ASN][1000 genomes]
rs1150715	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1150722	0.83[AFR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1150723	0.86[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs1150725	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1225600	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12332986	0.80[ASN][1000 genomes]
rs1600621	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1679723	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1736892	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1778510	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2191036	0.80[ASN][1000 genomes]
rs2799076	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28475822	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3757180	0.93[ASN][1000 genomes]
rs3757183	0.96[ASN][1000 genomes]
rs6456812	0.83[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs6456817	1.00[ASN][1000 genomes]
rs6456820	0.80[ASN][1000 genomes]
rs6899512	0.80[ASN][1000 genomes]
rs6901001	1.00[ASN][1000 genomes]
rs6902583	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6908459	1.00[ASN][1000 genomes]
rs6910120	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6912921	0.93[ASN][1000 genomes]
rs6918043	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6918631	1.00[ASN][1000 genomes]
rs6922161	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6922302	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6927023	0.80[ASN][1000 genomes]
rs6929449	1.00[ASN][1000 genomes]
rs6938371	0.93[ASN][1000 genomes]
rs6941222	0.80[ASN][1000 genomes]
rs7747772	0.84[ASN][1000 genomes]
rs7752721	0.96[ASN][1000 genomes]
rs7759855	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7767897	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9295769	1.00[ASN][1000 genomes]
rs9295770	0.93[ASN][1000 genomes]
rs9461450	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9461453	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9461457	0.93[ASN][1000 genomes]
rs9468328	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9468335	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9468337	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9468341	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9468375	0.86[ASN][1000 genomes]
rs9468384	0.80[ASN][1000 genomes]
rs9654587	0.93[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	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:58 , 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	chr6:28290600-28295800	ZNF genes & repeats	Duodenum Smooth Muscle	Duodenum
3	chr6:28290800-28298200	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
4	chr6:28291400-28298000	ZNF genes & repeats	Liver	Liver
5	chr6:28291600-28296000	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
6	chr6:28292000-28295800	ZNF genes & repeats	Fetal Muscle Leg	muscle
7	chr6:28292600-28297200	ZNF genes & repeats	Stomach Smooth Muscle	stomach
8	chr6:28292800-28295800	ZNF genes & repeats	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
9	chr6:28292800-28295800	ZNF genes & repeats	Adipose Nuclei	Adipose
10	chr6:28293200-28295800	ZNF genes & repeats	Ganglion Eminence derived primary cultured neurospheres	brain
11	chr6:28293600-28295800	ZNF genes & repeats	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
12	chr6:28293600-28295800	ZNF genes & repeats	Sigmoid Colon	Sigmoid Colon
13	chr6:28293800-28295800	ZNF genes & repeats	H9 Derived Neuron Cultured Cells	ES cell derived
14	chr6:28293800-28295800	ZNF genes & repeats	Rectal Mucosa Donor 29	rectum
15	chr6:28294800-28302000	Weak transcription	HepG2	liver
16	chr6:28294800-28302800	Weak transcription	Placenta Amnion	Placenta Amnion
17	chr6:28295000-28296000	Strong transcription	Brain Cingulate Gyrus	brain
18	chr6:28295400-28296600	Weak transcription	Fetal Intestine Large	intestine
19	chr6:28295400-28296600	Weak transcription	Fetal Stomach	stomach
20	chr6:28295400-28296600	Weak transcription	Pancreas	Pancrea
21	chr6:28295400-28296800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
22	chr6:28295400-28296800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
23	chr6:28295400-28296800	Weak transcription	Esophagus	oesophagus
24	chr6:28295400-28296800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
25	chr6:28295400-28296800	Weak transcription	Gastric	stomach
26	chr6:28295400-28297000	Strong transcription	Fetal Muscle Trunk	muscle
27	chr6:28295400-28301400	Weak transcription	Rectal Smooth Muscle	rectum
28	chr6:28295400-28302400	Weak transcription	Brain Angular Gyrus	brain
29	chr6:28295400-28302800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
30	chr6:28295400-28303000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
31	chr6:28295400-28303000	Weak transcription	Thymus	Thymus
32	chr6:28295600-28295800	Strong transcription	Left Ventricle	heart
33	chr6:28295600-28296600	Weak transcription	H1 Cell Line	embryonic stem cell
34	chr6:28295600-28296600	Weak transcription	HUES64 Cell Line	embryonic stem cell
35	chr6:28295600-28296600	Weak transcription	Colonic Mucosa	Colon
36	chr6:28295600-28296600	Weak transcription	Colon Smooth Muscle	Colon
37	chr6:28295600-28296600	Weak transcription	Ovary	ovary
38	chr6:28295600-28296600	Weak transcription	Skeletal Muscle Male	skeletal muscle
39	chr6:28295600-28296800	Weak transcription	HUES6 Cell Line	embryonic stem cell
40	chr6:28295600-28296800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
41	chr6:28295600-28296800	Weak transcription	Cortex derived primary cultured neurospheres	brain
42	chr6:28295600-28296800	Weak transcription	Brain Hippocampus Middle	brain
43	chr6:28295600-28296800	Weak transcription	Brain Inferior Temporal Lobe	brain
44	chr6:28295600-28296800	Weak transcription	Psoas Muscle	Psoas
45	chr6:28295600-28296800	Weak transcription	Rectal Mucosa Donor 31	rectum
46	chr6:28295600-28296800	Weak transcription	Right Ventricle	heart
47	chr6:28295600-28296800	Weak transcription	Skeletal Muscle Female	skeletal muscle
48	chr6:28295600-28297000	Weak transcription	Brain Anterior Caudate	brain
49	chr6:28295600-28297000	Weak transcription	Duodenum Mucosa	Duodenum
50	chr6:28295600-28297200	Weak transcription	Fetal Brain Female	brain

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