Variant report

Variant	rs72819880
Chromosome Location	chr10:98780933-98780934
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	chr10:98760738..98762506-chr10:98779291..98781276,2	MCF-7	breast:

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs12253289	0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12571254	0.85[AFR][1000 genomes];0.80[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12572723	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17112311	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs35736823	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4600137	0.85[AFR][1000 genomes];0.80[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs61644651	0.92[AFR][1000 genomes];0.80[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs61707312	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7069617	0.96[ASN][1000 genomes]
rs72819878	0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs72819886	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs72819888	1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs74153750	0.80[AMR][1000 genomes];0.87[EUR][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	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:70 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:98777400-98781000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
2	chr10:98777400-98781600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
3	chr10:98777400-98782000	Enhancers	Fetal Muscle Leg	muscle
4	chr10:98777600-98781400	Weak transcription	Primary hematopoietic stem cells	blood
5	chr10:98777600-98781600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr10:98777600-98791000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
7	chr10:98778000-98797200	Strong transcription	Fetal Thymus	thymus
8	chr10:98778400-98782000	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr10:98778800-98781400	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr10:98778800-98794400	Weak transcription	Thymus	Thymus
11	chr10:98779000-98784400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr10:98779200-98781200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
13	chr10:98779200-98781200	Enhancers	Right Ventricle	heart
14	chr10:98779200-98782600	Strong transcription	Fetal Brain Female	brain
15	chr10:98779400-98781200	Enhancers	Fetal Intestine Small	intestine
16	chr10:98779600-98781000	Enhancers	iPS-18 Cell Line	embryonic stem cell
17	chr10:98779600-98781200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
18	chr10:98779600-98782800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
19	chr10:98779800-98781000	Enhancers	Fetal Intestine Large	intestine
20	chr10:98779800-98781200	Enhancers	Fetal Lung	lung
21	chr10:98779800-98781800	Enhancers	Duodenum Smooth Muscle	Duodenum
22	chr10:98780000-98781000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
23	chr10:98780000-98781200	Enhancers	Rectal Smooth Muscle	rectum
24	chr10:98780000-98781200	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
25	chr10:98780000-98781200	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
26	chr10:98780000-98781400	Enhancers	Fetal Heart	heart
27	chr10:98780000-98782000	Enhancers	HSMMtube	muscle
28	chr10:98780000-98782200	Enhancers	Cortex derived primary cultured neurospheres	brain
29	chr10:98780000-98782200	Enhancers	Brain Cingulate Gyrus	brain
30	chr10:98780200-98781000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
31	chr10:98780200-98781000	Flanking Active TSS	Stomach Smooth Muscle	stomach
32	chr10:98780200-98781000	Enhancers	NH-A	brain
33	chr10:98780200-98781200	Enhancers	H1 Cell Line	embryonic stem cell
34	chr10:98780200-98781200	Enhancers	HUES48 Cell Line	embryonic stem cell
35	chr10:98780200-98781200	Genic enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
36	chr10:98780200-98781200	Enhancers	Adipose Nuclei	Adipose
37	chr10:98780200-98781200	Enhancers	Fetal Brain Male	brain
38	chr10:98780200-98781200	Enhancers	Gastric	stomach
39	chr10:98780200-98781200	Enhancers	Left Ventricle	heart
40	chr10:98780200-98781200	Enhancers	Pancreas	Pancrea
41	chr10:98780200-98781200	Enhancers	Rectal Mucosa Donor 31	rectum
42	chr10:98780200-98781200	Enhancers	HSMM	muscle
43	chr10:98780200-98781400	Enhancers	iPS-20b Cell Line	embryonic stem cell
44	chr10:98780200-98781400	Enhancers	Brain Inferior Temporal Lobe	brain
45	chr10:98780200-98781400	Enhancers	Ovary	ovary
46	chr10:98780200-98782600	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
47	chr10:98780400-98781000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
48	chr10:98780400-98781200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
49	chr10:98780400-98781200	Enhancers	Brain Anterior Caudate	brain
50	chr10:98780400-98781200	Genic enhancers	Brain Germinal Matrix	brain

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