Variant report

Variant	rs17112311
Chromosome Location	chr10:98786658-98786659
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:98590990..98593899-chr10:98785293..98787590,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000196233	Chromatin interaction

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs11815437	0.82[CEU][hapmap]
rs12253289	0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12571254	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.80[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12572723	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17112206	0.82[CEU][hapmap]
rs17112208	0.82[CEU][hapmap]
rs17112234	0.82[CEU][hapmap]
rs35736823	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3829856	0.82[CEU][hapmap]
rs4600137	0.80[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs61644651	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs61707312	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7069617	0.93[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs72819878	0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs72819880	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs72819886	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs72819888	1.00[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs74153750	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7899594	0.82[CEU][hapmap]
rs7911787	0.82[CEU][hapmap]

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	nsv532232	chr10:98360775-99141797	Enhancers Strong transcription Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
2	nsv1052931	chr10:98676192-98862301	Weak transcription Bivalent Enhancer ZNF genes & repeats Strong transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
3	nsv1042398	chr10:98691406-98851346	Enhancers Strong transcription Weak transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:98777600-98791000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr10:98778000-98797200	Strong transcription	Fetal Thymus	thymus
3	chr10:98778800-98794400	Weak transcription	Thymus	Thymus
4	chr10:98781200-98788400	Weak transcription	Brain Germinal Matrix	brain
5	chr10:98781200-98789600	Weak transcription	Brain Anterior Caudate	brain
6	chr10:98781200-98790400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr10:98781200-98790600	Weak transcription	H1 Cell Line	embryonic stem cell
8	chr10:98781200-98791800	Weak transcription	HUES48 Cell Line	embryonic stem cell
9	chr10:98781200-98792800	Weak transcription	Fetal Brain Male	brain
10	chr10:98781200-98794200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
11	chr10:98781200-98797000	Weak transcription	Gastric	stomach
12	chr10:98782000-98792400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
13	chr10:98782600-98789600	Weak transcription	Fetal Brain Female	brain
14	chr10:98784200-98786800	Enhancers	Skeletal Muscle Female	skeletal muscle
15	chr10:98784200-98797000	Weak transcription	Pancreas	Pancrea
16	chr10:98784200-98797400	Weak transcription	Esophagus	oesophagus
17	chr10:98784800-98788200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr10:98785200-98792200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
19	chr10:98785600-98786800	Weak transcription	Duodenum Mucosa	Duodenum
20	chr10:98785600-98797200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
21	chr10:98785800-98797000	Weak transcription	Brain Angular Gyrus	brain
22	chr10:98785800-98797000	Weak transcription	Brain Inferior Temporal Lobe	brain
23	chr10:98785800-98797000	Weak transcription	Brain Substantia Nigra	brain
24	chr10:98786400-98787000	Enhancers	HepG2	liver
25	chr10:98786400-98787200	Enhancers	Fetal Intestine Small	intestine

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