Variant report

Variant	rs17107001
Chromosome Location	chr10:89686509-89686510
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:89685840..89688439-chr10:89700788..89703474,2	MCF-7	breast:

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs10082505	1.00[EUR][1000 genomes]
rs10887764	0.87[AFR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11202609	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12245922	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12254375	1.00[EUR][1000 genomes]
rs12260220	1.00[EUR][1000 genomes]
rs12266639	1.00[EUR][1000 genomes]
rs12267296	1.00[EUR][1000 genomes]
rs12267986	1.00[EUR][1000 genomes]
rs17107461	0.90[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs35854253	1.00[ASN][1000 genomes]
rs4258291	1.00[EUR][1000 genomes]
rs59563535	1.00[EUR][1000 genomes]
rs60782486	1.00[EUR][1000 genomes]
rs73336617	1.00[EUR][1000 genomes]
rs73336632	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv1793518	chr10:89625582-89733420	Weak transcription Strong transcription Enhancers Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
2	esv1798260	chr10:89625582-89733420	Weak transcription Genic enhancers Strong transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	nsv1044043	chr10:89678935-89701069	Enhancers Weak transcription Genic enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	esv2530664	chr10:89685139-89686634	Genic enhancers Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:121 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:89647000-89711200	Weak transcription	Stomach Smooth Muscle	stomach
2	chr10:89663600-89687400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
3	chr10:89663800-89725400	Weak transcription	Colonic Mucosa	Colon
4	chr10:89666000-89712400	Weak transcription	Fetal Brain Male	brain
5	chr10:89673600-89726000	Weak transcription	Brain Substantia Nigra	brain
6	chr10:89674200-89695200	Weak transcription	Brain Cingulate Gyrus	brain
7	chr10:89674200-89711000	Weak transcription	HepG2	liver
8	chr10:89674600-89687000	Weak transcription	Rectal Mucosa Donor 29	rectum
9	chr10:89674600-89689800	Weak transcription	Fetal Lung	lung
10	chr10:89674600-89695600	Weak transcription	Fetal Muscle Trunk	muscle
11	chr10:89674800-89724400	Weak transcription	Fetal Brain Female	brain
12	chr10:89675400-89726000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr10:89675600-89687200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
14	chr10:89675600-89705000	Weak transcription	Fetal Stomach	stomach
15	chr10:89675600-89705200	Weak transcription	Esophagus	oesophagus
16	chr10:89676600-89686600	Weak transcription	Small Intestine	intestine
17	chr10:89676600-89695400	Weak transcription	Brain Anterior Caudate	brain
18	chr10:89676800-89691000	Weak transcription	Placenta Amnion	Placenta Amnion
19	chr10:89677200-89688200	Weak transcription	A549	lung
20	chr10:89678000-89694200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
21	chr10:89678800-89687000	Weak transcription	Liver	Liver
22	chr10:89679800-89691600	Weak transcription	Brain Hippocampus Middle	brain
23	chr10:89681000-89687200	Enhancers	Primary T helper cells PMA-I stimulated	--
24	chr10:89681200-89686600	Genic enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
25	chr10:89681600-89689400	Enhancers	Primary T helper naive cells from peripheral blood	blood
26	chr10:89681800-89691200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
27	chr10:89682000-89686800	Weak transcription	Primary T cells fromperipheralblood	blood
28	chr10:89682000-89687200	Weak transcription	Ovary	ovary
29	chr10:89682000-89705200	Weak transcription	Fetal Intestine Small	intestine
30	chr10:89682000-89705200	Weak transcription	Left Ventricle	heart
31	chr10:89682000-89705600	Weak transcription	Lung	lung
32	chr10:89682200-89687400	Genic enhancers	Primary B cells from cord blood	blood
33	chr10:89682400-89690400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
34	chr10:89682400-89705200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
35	chr10:89682800-89689200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
36	chr10:89683200-89686600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
37	chr10:89683200-89687200	Weak transcription	Skeletal Muscle Male	skeletal muscle
38	chr10:89683200-89687800	Strong transcription	Fetal Thymus	thymus
39	chr10:89683200-89695600	Weak transcription	Fetal Muscle Leg	muscle
40	chr10:89683200-89705000	Weak transcription	Thymus	Thymus
41	chr10:89683200-89715200	Weak transcription	Pancreas	Pancrea
42	chr10:89683200-89720800	Weak transcription	H1 Cell Line	embryonic stem cell
43	chr10:89683200-89723800	Weak transcription	Psoas Muscle	Psoas
44	chr10:89683800-89687400	Genic enhancers	Primary T cells from cord blood	blood
45	chr10:89683800-89687400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
46	chr10:89684000-89686600	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
47	chr10:89684000-89707400	Strong transcription	Dnd41	blood
48	chr10:89684000-89725600	Weak transcription	Gastric	stomach
49	chr10:89684000-89726200	Weak transcription	Spleen	Spleen
50	chr10:89684200-89690400	Weak transcription	Colon Smooth Muscle	Colon

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