Variant report

Variant	rs12242176
Chromosome Location	chr10:24840508-24840509
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	chr10:24840502..24842341-chr10:25305090..25307451,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000185875	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs11014150	1.00[ASN][1000 genomes]
rs11014151	1.00[ASN][1000 genomes]
rs11014153	1.00[ASN][1000 genomes]
rs12242020	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs2249909	0.92[ASN][1000 genomes]
rs2249911	0.92[ASN][1000 genomes]
rs2265261	0.92[ASN][1000 genomes]
rs2265262	0.92[ASN][1000 genomes]
rs2265263	0.92[ASN][1000 genomes]
rs2265264	0.92[ASN][1000 genomes]
rs60030083	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs61048438	1.00[ASN][1000 genomes]
rs7894922	0.90[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs7906230	1.00[ASN][1000 genomes]
rs7906758	0.90[AFR][1000 genomes];1.00[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1037958	chr10:24806631-24901088	Weak transcription Strong transcription Genic enhancers Active TSS Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region miRNA target site	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:60 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:24808600-24841600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr10:24809200-24845400	Weak transcription	Brain Substantia Nigra	brain
3	chr10:24822400-24841200	Weak transcription	Small Intestine	intestine
4	chr10:24822600-24843400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr10:24823400-24841800	Weak transcription	H9 Cell Line	embryonic stem cell
6	chr10:24829000-24845000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr10:24831000-24840600	Weak transcription	Stomach Mucosa	stomach
8	chr10:24832000-24841200	Weak transcription	Colonic Mucosa	Colon
9	chr10:24832400-24843200	Weak transcription	Psoas Muscle	Psoas
10	chr10:24834600-24842200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
11	chr10:24835000-24842200	Weak transcription	HepG2	liver
12	chr10:24835000-24845800	Weak transcription	Right Ventricle	heart
13	chr10:24835200-24840600	Weak transcription	Sigmoid Colon	Sigmoid Colon
14	chr10:24835200-24840800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
15	chr10:24835200-24840800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
16	chr10:24835200-24841200	Weak transcription	Pancreas	Pancrea
17	chr10:24835200-24841400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
18	chr10:24835200-24841600	Weak transcription	Duodenum Smooth Muscle	Duodenum
19	chr10:24835200-24842800	Weak transcription	Fetal Kidney	kidney
20	chr10:24835200-24843200	Weak transcription	Fetal Muscle Leg	muscle
21	chr10:24835200-24845200	Weak transcription	Spleen	Spleen
22	chr10:24835200-24845600	Weak transcription	Ovary	ovary
23	chr10:24835200-24845800	Weak transcription	Lung	lung
24	chr10:24835600-24840600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
25	chr10:24835600-24841800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr10:24835600-24845600	Weak transcription	NH-A	brain
27	chr10:24836000-24841200	Weak transcription	Osteobl	bone
28	chr10:24836600-24840800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
29	chr10:24836600-24840800	Strong transcription	Fetal Intestine Small	intestine
30	chr10:24836800-24842000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
31	chr10:24837000-24843600	Weak transcription	Skeletal Muscle Female	skeletal muscle
32	chr10:24838600-24841000	Weak transcription	Placenta Amnion	Placenta Amnion
33	chr10:24838800-24841400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
34	chr10:24838800-24841600	Weak transcription	Fetal Intestine Large	intestine
35	chr10:24839200-24840800	Weak transcription	Fetal Stomach	stomach
36	chr10:24839200-24845800	Weak transcription	Liver	Liver
37	chr10:24839400-24842400	Weak transcription	Skeletal Muscle Male	skeletal muscle
38	chr10:24839400-24845800	Weak transcription	Left Ventricle	heart
39	chr10:24839800-24841600	Enhancers	Gastric	stomach
40	chr10:24839800-24842200	Enhancers	HUES6 Cell Line	embryonic stem cell
41	chr10:24839800-24842600	Enhancers	Breast Myoepithelial Primary Cells	Breast
42	chr10:24840000-24841200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
43	chr10:24840000-24841200	Enhancers	iPS-20b Cell Line	embryonic stem cell
44	chr10:24840000-24841200	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
45	chr10:24840000-24842000	Enhancers	ES-I3 Cell Line	embryonic stem cell
46	chr10:24840000-24842000	Enhancers	HUES48 Cell Line	embryonic stem cell
47	chr10:24840000-24842000	Enhancers	iPS-18 Cell Line	embryonic stem cell
48	chr10:24840000-24842400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
49	chr10:24840000-24842400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
50	chr10:24840200-24841000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell

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