Variant report

Variant	rs17497903
Chromosome Location	chr10:52420020-52420021
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:52419903..52420416-chr10:81444547..81445060,2	MCF-7	breast:
2	chr10:52381243..52386496-chr10:52418227..52421959,6	MCF-7	breast:
3	chr10:52419698..52420201-chr10:81445043..81445551,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000226200	Chromatin interaction
ENSG00000198964	Chromatin interaction
ENSG00000224886	Chromatin interaction

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs11006277	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11006436	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11006438	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4367895	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4475874	0.80[AFR][1000 genomes];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4503481	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4517466	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4636605	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4935738	0.82[EUR][1000 genomes]
rs61857061	0.84[AFR][1000 genomes];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs61858140	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs61858144	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs61858145	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs61858147	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs61858148	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs61858149	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs61858152	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7919879	0.88[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1051087	chr10:51886486-52447295	Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
2	nsv916214	chr10:51886486-52458983	Active TSS Enhancers Strong transcription Weak transcription Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
3	nsv918212	chr10:51886486-52465482	Enhancers Weak transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
4	nsv817412	chr10:51911034-52432990	Weak transcription Enhancers Genic enhancers Active TSS Strong transcription ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
5	nsv469522	chr10:52276564-52447589	Flanking Active TSS Enhancers Weak transcription Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
6	nsv482564	chr10:52276564-52447589	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
7	nsv895393	chr10:52413720-52530819	Enhancers Flanking Active TSS Active TSS Weak transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
8	nsv948007	chr10:52414948-52500270	Active TSS Flanking Active TSS Enhancers Weak transcription Bivalent/Poised TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
9	nsv8662	chr10:52416662-52461079	Flanking Active TSS Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:63 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:52417600-52420200	Active TSS	K562	blood
2	chr10:52419000-52420400	Active TSS	Hela-S3	cervix
3	chr10:52419200-52420200	Active TSS	Fetal Intestine Small	intestine
4	chr10:52419200-52420400	Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
5	chr10:52419200-52420400	Active TSS	A549	lung
6	chr10:52419400-52420200	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr10:52419400-52420200	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
8	chr10:52419400-52420200	Active TSS	Brain Inferior Temporal Lobe	brain
9	chr10:52419400-52420200	Active TSS	Fetal Stomach	stomach
10	chr10:52419400-52420200	Flanking Active TSS	Fetal Thymus	thymus
11	chr10:52419400-52420200	Active TSS	Rectal Mucosa Donor 31	rectum
12	chr10:52419400-52420200	Transcr. at gene 5' and 3'	Stomach Smooth Muscle	stomach
13	chr10:52419400-52420400	Active TSS	iPS-15b Cell Line	embryonic stem cell
14	chr10:52419400-52420400	Flanking Active TSS	Primary B cells from peripheral blood	blood
15	chr10:52419400-52420400	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
16	chr10:52419400-52420400	Flanking Active TSS	Primary Natural Killer cells fromperipheralblood	blood
17	chr10:52419400-52420400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
18	chr10:52419400-52420400	Active TSS	Adipose Nuclei	Adipose
19	chr10:52419400-52420400	Active TSS	Brain Anterior Caudate	brain
20	chr10:52419400-52420400	Active TSS	Pancreatic Islets	Pancreatic Islet
21	chr10:52419400-52420400	Active TSS	Thymus	Thymus
22	chr10:52419400-52420600	Flanking Active TSS	Primary T cells fromperipheralblood	blood
23	chr10:52419600-52420200	Flanking Active TSS	Primary monocytes fromperipheralblood	blood
24	chr10:52419600-52420200	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
25	chr10:52419600-52420200	Flanking Active TSS	Primary B cells from cord blood	blood
26	chr10:52419600-52420200	Active TSS	Primary hematopoietic stem cells	blood
27	chr10:52419600-52420200	Active TSS	Primary T helper naive cells fromperipheralblood	blood
28	chr10:52419600-52420200	Active TSS	Primary T killer memory cells from peripheral blood	blood
29	chr10:52419600-52420200	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
30	chr10:52419600-52420200	Active TSS	Brain Hippocampus Middle	brain
31	chr10:52419600-52420200	Active TSS	Duodenum Smooth Muscle	Duodenum
32	chr10:52419600-52420200	Flanking Active TSS	Placenta	Placenta
33	chr10:52419600-52420200	Active TSS	Stomach Mucosa	stomach
34	chr10:52419600-52420200	Active TSS	GM12878-XiMat	blood
35	chr10:52419600-52420400	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
36	chr10:52419600-52420400	Flanking Active TSS	Primary T helper 17 cells PMA-I stimulated	--
37	chr10:52419600-52420400	Active TSS	Primary T killer naive cells fromperipheralblood	blood
38	chr10:52419600-52420400	Active TSS	Fetal Kidney	kidney
39	chr10:52419600-52420400	Active TSS	Fetal Muscle Leg	muscle
40	chr10:52419600-52420400	Active TSS	Ovary	ovary
41	chr10:52419600-52420400	Active TSS	Right Ventricle	heart
42	chr10:52419800-52420200	Active TSS	Primary T cells from cord blood	blood
43	chr10:52419800-52420200	Active TSS	Primary T helper naive cells from peripheral blood	blood
44	chr10:52419800-52420200	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
45	chr10:52419800-52420200	Flanking Active TSS	Primary mononuclear cells fromperipheralblood	Blood
46	chr10:52419800-52420200	Active TSS	Liver	Liver
47	chr10:52419800-52420200	Flanking Active TSS	Fetal Intestine Large	intestine
48	chr10:52419800-52420200	Active TSS	Skeletal Muscle Male	skeletal muscle
49	chr10:52419800-52420200	Active TSS	Skeletal Muscle Female	skeletal muscle
50	chr10:52419800-52420200	Active TSS	HepG2	liver

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