Variant report

Variant	rs73406069
Chromosome Location	chr15:49927990-49927991
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:49922622..49925463-chr15:49927665..49931439,3	MCF-7	breast:
2	chr15:49917069..49919627-chr15:49927874..49930419,3	MCF-7	breast:
3	chr15:49926653..49929623-chr15:49932386..49934262,2	K562	blood:
4	chr15:49926539..49929038-chr15:49939808..49941780,2	K562	blood:
5	chr15:49911947..49914805-chr15:49927646..49929802,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000166262	Chromatin interaction
ENSG00000104047	Chromatin interaction

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs10220770	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10220846	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10519234	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10519235	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10519238	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1055135	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11539519	1.00[EUR][1000 genomes]
rs13313447	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16962663	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16962664	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16962666	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16962668	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16962670	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16962676	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16962680	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16962697	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16962735	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1911615	1.00[EUR][1000 genomes]
rs1911618	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58889385	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59112029	0.81[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs59565793	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59749619	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59942223	0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60640257	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7171994	0.87[EUR][1000 genomes]
rs7175199	0.96[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7175805	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7176887	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73391021	0.81[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73391038	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73391046	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73406025	1.00[EUR][1000 genomes]
rs73406036	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73406046	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73406051	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73406052	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73406056	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73406060	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73406085	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73406091	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73406098	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73406100	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73407903	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73407904	0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73407908	0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74012439	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs74012441	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8039808	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8041629	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8041771	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9652425	0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];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	nsv431388	chr15:49835663-49997483	Flanking Active TSS Strong transcription ZNF genes & repeats Weak transcription Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
2	nsv1044277	chr15:49921547-50702386	Enhancers Active TSS Weak transcription Strong transcription Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	107 gene(s)	inside rSNPs	diseases
3	nsv542380	chr15:49921547-50702386	Enhancers Strong transcription Weak transcription Genic enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	107 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:49913600-49937400	Weak transcription	Spleen	Spleen
2	chr15:49914000-49930000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr15:49914400-49936400	Weak transcription	Small Intestine	intestine
4	chr15:49914400-49938000	Weak transcription	Brain Substantia Nigra	brain
5	chr15:49914600-49932600	Weak transcription	Fetal Brain Male	brain
6	chr15:49914600-49934400	Weak transcription	Stomach Mucosa	stomach
7	chr15:49914800-49937800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
8	chr15:49915000-49936600	Weak transcription	Pancreas	Pancrea
9	chr15:49915400-49937800	Weak transcription	Brain Anterior Caudate	brain
10	chr15:49916000-49936400	Weak transcription	Psoas Muscle	Psoas
11	chr15:49918000-49938600	Weak transcription	Right Ventricle	heart
12	chr15:49918000-49938800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
13	chr15:49918200-49929200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
14	chr15:49918200-49929400	Weak transcription	Colon Smooth Muscle	Colon
15	chr15:49918200-49929400	Weak transcription	Rectal Smooth Muscle	rectum
16	chr15:49918200-49929800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
17	chr15:49918200-49931400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
18	chr15:49918200-49932800	Weak transcription	Thymus	Thymus
19	chr15:49918200-49933200	Weak transcription	Esophagus	oesophagus
20	chr15:49918200-49934000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
21	chr15:49918200-49934000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
22	chr15:49918200-49935800	Weak transcription	Brain Germinal Matrix	brain
23	chr15:49918200-49936200	Weak transcription	Aorta	Aorta
24	chr15:49918200-49936600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
25	chr15:49918200-49936600	Weak transcription	Sigmoid Colon	Sigmoid Colon
26	chr15:49918200-49937200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
27	chr15:49918200-49938000	Weak transcription	Brain Inferior Temporal Lobe	brain
28	chr15:49918200-49938400	Weak transcription	HepG2	liver
29	chr15:49918200-49942200	Weak transcription	GM12878-XiMat	blood
30	chr15:49918400-49931400	Strong transcription	Monocytes-CD14+_RO01746	blood
31	chr15:49918400-49938000	Weak transcription	Colonic Mucosa	Colon
32	chr15:49918600-49930000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
33	chr15:49918600-49932200	Weak transcription	Primary neutrophils fromperipheralblood	blood
34	chr15:49918600-49938800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
35	chr15:49918800-49929800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
36	chr15:49919600-49931200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
37	chr15:49919800-49940200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
38	chr15:49920000-49938200	Weak transcription	Brain Angular Gyrus	brain
39	chr15:49920000-49940400	Weak transcription	A549	lung
40	chr15:49920200-49936600	Weak transcription	Skeletal Muscle Male	skeletal muscle
41	chr15:49920600-49930400	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
42	chr15:49920800-49929200	Weak transcription	Primary B cells from cord blood	blood
43	chr15:49920800-49936400	Weak transcription	K562	blood
44	chr15:49920800-49937800	Weak transcription	NHEK	skin
45	chr15:49920800-49938000	Weak transcription	Muscle Satellite Cultured Cells	--
46	chr15:49920800-49940000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
47	chr15:49921000-49935600	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
48	chr15:49921000-49937600	Weak transcription	HMEC	breast
49	chr15:49921400-49928800	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
50	chr15:49921400-49934400	Weak transcription	Primary hematopoietic stem cells	blood

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