Variant report

Variant	rs72894784
Chromosome Location	chr6:35462305-35462306
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	chr6:35284828..35287502-chr6:35459599..35462310,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000023892	Chromatin interaction

Extended variants
information (count: 54 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs10498734	1.00[AFR][1000 genomes]
rs12526404	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12527303	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12527329	1.00[AFR][1000 genomes]
rs12527893	1.00[AFR][1000 genomes]
rs12528458	1.00[AFR][1000 genomes];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12529688	1.00[AFR][1000 genomes];0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12665445	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1334894	1.00[AFR][1000 genomes]
rs16877540	1.00[AFR][1000 genomes];0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1883637	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1977655	0.81[EUR][1000 genomes]
rs2103680	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55791123	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs55922240	1.00[AFR][1000 genomes]
rs56060039	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56062505	1.00[AFR][1000 genomes];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs56313753	1.00[AFR][1000 genomes]
rs56318292	1.00[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs56353810	1.00[AFR][1000 genomes];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6906096	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72894781	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72896709	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72899748	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72899772	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs72899794	1.00[AFR][1000 genomes];0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs72899796	1.00[AFR][1000 genomes];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs72911380	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs72911394	1.00[AFR][1000 genomes];0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs72911397	1.00[AFR][1000 genomes];0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs72913405	1.00[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs72913423	1.00[AFR][1000 genomes]
rs72913427	1.00[AFR][1000 genomes]
rs72921231	1.00[AFR][1000 genomes]
rs747411	1.00[AFR][1000 genomes]
rs7754668	1.00[AFR][1000 genomes]
rs7756437	1.00[AFR][1000 genomes]
rs7765792	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7768598	0.82[EUR][1000 genomes]
rs9688674	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9689799	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:13 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv528351	chr6:35377922-35465786	Flanking Active TSS Weak transcription Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Enhancers Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	69 gene(s)	inside rSNPs	diseases
2	nsv519370	chr6:35378778-35537406	Weak transcription Bivalent Enhancer Enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	72 gene(s)	inside rSNPs	diseases
3	nsv984463	chr6:35432948-35477634	Weak transcription Enhancers Strong transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region miRNA	67 gene(s)	inside rSNPs	diseases
4	nsv602911	chr6:35457396-35465483	Enhancers Active TSS Flanking Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	22 gene(s)	inside rSNPs	diseases
5	esv1843819	chr6:35457396-35465749	Active TSS Enhancers Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	23 gene(s)	inside rSNPs	diseases
6	esv1851060	chr6:35457396-35465749	Active TSS Enhancers Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	23 gene(s)	inside rSNPs	diseases
7	esv1794339	chr6:35457396-35465786	Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3' Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	23 gene(s)	inside rSNPs	diseases
8	esv1800978	chr6:35457396-35465786	Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Weak transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	23 gene(s)	inside rSNPs	diseases
9	esv1803037	chr6:35457396-35465786	Flanking Bivalent TSS/Enh Enhancers Active TSS Flanking Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	23 gene(s)	inside rSNPs	diseases
10	esv1837448	chr6:35457396-35465786	Flanking Active TSS Transcr. at gene 5' and 3' Enhancers Weak transcription Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	23 gene(s)	inside rSNPs	diseases
11	nsv462909	chr6:35457396-35502202	Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Weak transcription Bivalent/Poised TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region	24 gene(s)	inside rSNPs	diseases
12	nsv602912	chr6:35457396-35502202	Enhancers Weak transcription Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	24 gene(s)	inside rSNPs	diseases
13	nsv602913	chr6:35457842-35465422	Active TSS Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	22 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:108 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:35455400-35463400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
2	chr6:35456200-35464400	Enhancers	Primary hematopoietic stem cells short term culture	blood
3	chr6:35457200-35463200	Enhancers	Ovary	ovary
4	chr6:35457200-35463400	Enhancers	Lung	lung
5	chr6:35457200-35463600	Enhancers	Pancreas	Pancrea
6	chr6:35457600-35463000	Enhancers	NHDF-Ad	bronchial
7	chr6:35457800-35462800	Flanking Active TSS	Stomach Smooth Muscle	stomach
8	chr6:35458400-35463400	Enhancers	Cortex derived primary cultured neurospheres	brain
9	chr6:35458400-35463800	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr6:35458400-35463800	Weak transcription	Brain Angular Gyrus	brain
11	chr6:35458600-35463000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr6:35458600-35463000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
13	chr6:35458600-35463200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
14	chr6:35458600-35463400	Weak transcription	Brain Substantia Nigra	brain
15	chr6:35458600-35463400	Enhancers	Left Ventricle	heart
16	chr6:35458600-35463800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
17	chr6:35458800-35462600	Enhancers	ES-I3 Cell Line	embryonic stem cell
18	chr6:35458800-35462600	Enhancers	HSMMtube	muscle
19	chr6:35458800-35462800	Enhancers	iPS-18 Cell Line	embryonic stem cell
20	chr6:35458800-35463000	Enhancers	H1 Cell Line	embryonic stem cell
21	chr6:35458800-35463200	Enhancers	Fetal Intestine Large	intestine
22	chr6:35458800-35463200	Enhancers	Skeletal Muscle Female	skeletal muscle
23	chr6:35458800-35463400	Enhancers	Right Atrium	heart
24	chr6:35458800-35463600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
25	chr6:35458800-35463600	Weak transcription	Brain Anterior Caudate	brain
26	chr6:35458800-35463800	Weak transcription	Brain Hippocampus Middle	brain
27	chr6:35459200-35462600	Flanking Active TSS	Rectal Smooth Muscle	rectum
28	chr6:35459400-35463200	Enhancers	Primary hematopoietic stem cells	blood
29	chr6:35459400-35463200	Enhancers	Liver	Liver
30	chr6:35459400-35463200	Enhancers	Right Ventricle	heart
31	chr6:35459800-35463000	Bivalent Enhancer	Primary neutrophils fromperipheralblood	blood
32	chr6:35460000-35463600	Weak transcription	A549	lung
33	chr6:35460200-35462600	Transcr. at gene 5' and 3'	Foreskin Fibroblast Primary Cells skin01	Skin
34	chr6:35460200-35463000	Enhancers	HUES6 Cell Line	embryonic stem cell
35	chr6:35460400-35462800	Enhancers	iPS-20b Cell Line	embryonic stem cell
36	chr6:35460400-35463200	Enhancers	HUES48 Cell Line	embryonic stem cell
37	chr6:35460400-35463600	Bivalent Enhancer	Primary monocytes fromperipheralblood	blood
38	chr6:35460600-35463400	Transcr. at gene 5' and 3'	Foreskin Fibroblast Primary Cells skin02	Skin
39	chr6:35460600-35463800	Bivalent Enhancer	Monocytes-CD14+_RO01746	blood
40	chr6:35460800-35463400	Weak transcription	K562	blood
41	chr6:35461000-35465000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
42	chr6:35461000-35465000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
43	chr6:35461200-35462400	Genic enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
44	chr6:35461200-35463000	Enhancers	Spleen	Spleen
45	chr6:35461200-35463400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
46	chr6:35461200-35463400	Flanking Active TSS	Duodenum Smooth Muscle	Duodenum
47	chr6:35461200-35463800	Bivalent Enhancer	Fetal Thymus	thymus
48	chr6:35461400-35462400	Genic enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
49	chr6:35461600-35462400	Enhancers	Sigmoid Colon	Sigmoid Colon
50	chr6:35461600-35462600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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