Variant report

Variant	rs16917615
Chromosome Location	chr10:18938188-18938189
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	chr10:18937279..18942257-chr10:18944156..18951752,16	MCF-7	breast:

Variant related genes	Relation type
ENSG00000152487	Chromatin interaction
ENSG00000165997	Chromatin interaction

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs10466095	0.93[YRI][hapmap];0.86[AFR][1000 genomes]
rs10508564	0.94[YRI][hapmap];0.89[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs11014651	0.86[YRI][hapmap]
rs11014769	1.00[YRI][hapmap]
rs11014986	0.87[YRI][hapmap]
rs11014994	0.91[AFR][1000 genomes]
rs11015019	0.94[AFR][1000 genomes]
rs11015036	0.93[YRI][hapmap];0.94[AFR][1000 genomes]
rs11015184	0.94[YRI][hapmap];0.94[AFR][1000 genomes]
rs11015254	0.87[YRI][hapmap];0.84[AFR][1000 genomes]
rs11015323	0.82[YRI][hapmap];1.00[AMR][1000 genomes]
rs11015443	0.92[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs11498244	0.83[AFR][1000 genomes]
rs12243188	0.87[YRI][hapmap]
rs12246317	0.88[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs12246433	0.88[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs12247548	0.83[AMR][1000 genomes]
rs12247869	0.94[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12249604	0.93[YRI][hapmap];0.81[AFR][1000 genomes]
rs12250601	0.86[AFR][1000 genomes]
rs12258306	0.86[AFR][1000 genomes]
rs12258688	0.92[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs12267659	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12269605	0.89[AFR][1000 genomes]
rs16917589	0.93[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16917628	0.93[YRI][hapmap];0.97[AFR][1000 genomes]
rs17363677	0.93[YRI][hapmap];0.94[AFR][1000 genomes]
rs28794621	0.83[AMR][1000 genomes]
rs4514309	1.00[CEU][hapmap]
rs4614337	0.93[YRI][hapmap];0.89[AFR][1000 genomes]
rs7088674	0.82[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs7100918	0.92[AFR][1000 genomes];1.00[AMR][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	nsv550042	chr10:18683267-18994583	ZNF genes & repeats Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv466762	chr10:18932172-18976659	Enhancers Weak transcription Active TSS Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
3	nsv550121	chr10:18932172-18976659	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 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	chr10:18905000-18938200	Weak transcription	Hela-S3	cervix
2	chr10:18916800-18938400	Weak transcription	HSMMtube	muscle
3	chr10:18916800-18939800	Weak transcription	Aorta	Aorta
4	chr10:18916800-18940200	Weak transcription	Spleen	Spleen
5	chr10:18917000-18938200	Weak transcription	Primary B cells from peripheral blood	blood
6	chr10:18917000-18938200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
7	chr10:18917000-18938200	Weak transcription	Cortex derived primary cultured neurospheres	brain
8	chr10:18917000-18938200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
9	chr10:18917000-18938200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr10:18917000-18938200	Weak transcription	Brain Angular Gyrus	brain
11	chr10:18917000-18938400	Weak transcription	H1 Cell Line	embryonic stem cell
12	chr10:18917000-18938400	Weak transcription	Ovary	ovary
13	chr10:18917000-18938400	Weak transcription	Skeletal Muscle Male	skeletal muscle
14	chr10:18917000-18938400	Weak transcription	Skeletal Muscle Female	skeletal muscle
15	chr10:18917000-18938800	Weak transcription	HSMM	muscle
16	chr10:18917000-18939600	Weak transcription	Placenta	Placenta
17	chr10:18917000-18939800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
18	chr10:18917000-18940200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
19	chr10:18917000-18940200	Weak transcription	Lung	lung
20	chr10:18921400-18939000	Weak transcription	Right Ventricle	heart
21	chr10:18922600-18939600	Weak transcription	Sigmoid Colon	Sigmoid Colon
22	chr10:18925200-18939200	Weak transcription	Stomach Smooth Muscle	stomach
23	chr10:18925600-18939400	Weak transcription	Brain Substantia Nigra	brain
24	chr10:18926000-18940200	Weak transcription	Small Intestine	intestine
25	chr10:18926200-18939200	Weak transcription	Fetal Kidney	kidney
26	chr10:18926400-18938600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
27	chr10:18926600-18938200	Weak transcription	NHEK	skin
28	chr10:18927400-18939600	Weak transcription	Pancreas	Pancrea
29	chr10:18928000-18938400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
30	chr10:18928200-18938200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
31	chr10:18928200-18939400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
32	chr10:18928400-18938800	Weak transcription	Rectal Mucosa Donor 29	rectum
33	chr10:18928800-18939600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
34	chr10:18928800-18939600	Weak transcription	Gastric	stomach
35	chr10:18929000-18939000	Weak transcription	Rectal Smooth Muscle	rectum
36	chr10:18929600-18938800	Weak transcription	Fetal Intestine Large	intestine
37	chr10:18931000-18939600	Weak transcription	Fetal Muscle Leg	muscle
38	chr10:18932000-18938200	Weak transcription	Colon Smooth Muscle	Colon
39	chr10:18932800-18938400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
40	chr10:18933200-18939400	Weak transcription	Thymus	Thymus
41	chr10:18933600-18938200	Weak transcription	HUVEC	blood vessel
42	chr10:18934600-18939400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
43	chr10:18935400-18938200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
44	chr10:18935400-18938200	Weak transcription	Duodenum Mucosa	Duodenum
45	chr10:18935400-18938600	Weak transcription	Duodenum Smooth Muscle	Duodenum
46	chr10:18935400-18938800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
47	chr10:18935800-18939200	Weak transcription	Rectal Mucosa Donor 31	rectum
48	chr10:18936200-18938400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
49	chr10:18936400-18938400	Weak transcription	Brain Hippocampus Middle	brain
50	chr10:18936400-18938800	Weak transcription	NH-A	brain

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