Variant report

Variant	rs17117789
Chromosome Location	chr10:90999782-90999783
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:90993760..90996123-chr10:90998526..91001099,2	MCF-7	breast:

Extended variants
information (count: 13 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs11203046	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11203047	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11203051	1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12240489	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12258120	0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12262734	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12358054	1.00[JPT][hapmap]
rs7074555	0.87[CEU][hapmap];1.00[CHB][hapmap];0.83[CHD][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1042848	chr10:90466032-91318474	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Strong transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
2	nsv540741	chr10:90466032-91318474	Enhancers Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
3	esv2758235	chr10:90835064-91017486	Strong transcription Weak transcription Active TSS Enhancers Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	esv2759775	chr10:90835064-91017486	Weak transcription Bivalent/Poised TSS Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv1041964	chr10:90861380-91378356	Flanking Active TSS Enhancers Weak transcription Genic enhancers Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	82 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:110 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:90968400-91000800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr10:90968400-91002200	Weak transcription	Right Ventricle	heart
3	chr10:90973600-91001000	Weak transcription	Small Intestine	intestine
4	chr10:90977400-91010400	Weak transcription	Fetal Thymus	thymus
5	chr10:90977400-91010800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
6	chr10:90977600-91000600	Weak transcription	GM12878-XiMat	blood
7	chr10:90977600-91002000	Weak transcription	Hela-S3	cervix
8	chr10:90977600-91002000	Weak transcription	HSMMtube	muscle
9	chr10:90977600-91008800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
10	chr10:90977600-91009400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
11	chr10:90977600-91010400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
12	chr10:90977600-91010800	Weak transcription	Rectal Mucosa Donor 31	rectum
13	chr10:90979400-91003600	Strong transcription	Primary T cells from cord blood	blood
14	chr10:90985200-91001800	Weak transcription	Osteobl	bone
15	chr10:90985200-91010600	Weak transcription	Thymus	Thymus
16	chr10:90987400-91010800	Weak transcription	Placenta Amnion	Placenta Amnion
17	chr10:90987600-91001200	Weak transcription	Fetal Lung	lung
18	chr10:90987600-91010800	Weak transcription	Pancreas	Pancrea
19	chr10:90987800-91010600	Weak transcription	HSMM	muscle
20	chr10:90988000-91010600	Weak transcription	Muscle Satellite Cultured Cells	--
21	chr10:90988200-91001800	Weak transcription	A549	lung
22	chr10:90989200-91003200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
23	chr10:90990000-91001800	Weak transcription	HUES6 Cell Line	embryonic stem cell
24	chr10:90993400-91002800	Weak transcription	Primary T helper cells PMA-I stimulated	--
25	chr10:90994800-91010800	Weak transcription	Esophagus	oesophagus
26	chr10:90995400-91000800	Weak transcription	HUES64 Cell Line	embryonic stem cell
27	chr10:90995600-91000800	Weak transcription	H1 Cell Line	embryonic stem cell
28	chr10:90995600-91001000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
29	chr10:90995600-91001000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
30	chr10:90995600-91002200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
31	chr10:90995600-91003000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
32	chr10:90995800-91000800	Weak transcription	HUES48 Cell Line	embryonic stem cell
33	chr10:90996800-91001600	Strong transcription	Primary B cells from cord blood	blood
34	chr10:90997400-90999800	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
35	chr10:90997400-91000000	Genic enhancers	Primary monocytes fromperipheralblood	blood
36	chr10:90997600-91000800	Strong transcription	Duodenum Mucosa	Duodenum
37	chr10:90997800-91000400	Strong transcription	Liver	Liver
38	chr10:90998000-91000400	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
39	chr10:90998000-91000800	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
40	chr10:90998200-90999800	Strong transcription	Sigmoid Colon	Sigmoid Colon
41	chr10:90998400-91000800	Strong transcription	Primary B cells from peripheral blood	blood
42	chr10:90998600-90999800	Strong transcription	Rectal Smooth Muscle	rectum
43	chr10:90998600-91000600	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
44	chr10:90998600-91001800	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
45	chr10:90998600-91004200	Strong transcription	Primary T cells fromperipheralblood	blood
46	chr10:90998800-90999800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
47	chr10:90998800-90999800	Strong transcription	Primary hematopoietic stem cells	blood
48	chr10:90998800-90999800	Strong transcription	Adipose Nuclei	Adipose
49	chr10:90998800-90999800	Strong transcription	Duodenum Smooth Muscle	Duodenum
50	chr10:90998800-90999800	Strong transcription	Dnd41	blood

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