Variant report

Variant	rs1875789
Chromosome Location	chr10:53972465-53972466
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 13 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs10508965	0.81[AFR][1000 genomes]
rs10824246	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11001209	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11001213	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11001219	0.81[EUR][1000 genomes]
rs2339953	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs73346917	0.91[AFR][1000 genomes]
rs73346919	0.86[AFR][1000 genomes]
rs7917121	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][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	nsv1045692	chr10:53301450-54086823	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
2	esv2750961	chr10:53726294-54010594	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv532194	chr10:53746620-54735550	Weak transcription Genic enhancers Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
4	nsv895399	chr10:53900872-54219820	Enhancers Bivalent/Poised TSS Weak transcription Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:53963000-53973200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr10:53965600-53977400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr10:53967800-53973200	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr10:53968400-53973200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr10:53970200-53973200	Weak transcription	Psoas Muscle	Psoas
6	chr10:53970200-53975600	Weak transcription	HSMMtube	muscle
7	chr10:53971000-53974600	Enhancers	HUES48 Cell Line	embryonic stem cell
8	chr10:53971600-53973000	Enhancers	ES-I3 Cell Line	embryonic stem cell
9	chr10:53971600-53973000	Enhancers	HUES6 Cell Line	embryonic stem cell
10	chr10:53971600-53974600	Enhancers	HUES64 Cell Line	embryonic stem cell
11	chr10:53971800-53972800	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
12	chr10:53971800-53973000	Enhancers	iPS-20b Cell Line	embryonic stem cell
13	chr10:53971800-53973200	Enhancers	Colon Smooth Muscle	Colon
14	chr10:53971800-53973200	Enhancers	Rectal Mucosa Donor 31	rectum
15	chr10:53971800-53973600	Enhancers	Fetal Intestine Large	intestine
16	chr10:53971800-53974200	Enhancers	Fetal Intestine Small	intestine
17	chr10:53971800-53974600	Enhancers	H1 Cell Line	embryonic stem cell
18	chr10:53971800-53974600	Enhancers	iPS-15b Cell Line	embryonic stem cell
19	chr10:53971800-53974600	Enhancers	iPS-18 Cell Line	embryonic stem cell
20	chr10:53971800-53974600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
21	chr10:53972000-53972600	Enhancers	Stomach Mucosa	stomach
22	chr10:53972000-53972800	Enhancers	Rectal Mucosa Donor 29	rectum
23	chr10:53972000-53973200	Enhancers	Fetal Lung	lung
24	chr10:53972000-53973400	Enhancers	Duodenum Mucosa	Duodenum
25	chr10:53972000-53975800	Weak transcription	Fetal Muscle Leg	muscle
26	chr10:53972000-53976800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
27	chr10:53972200-53972600	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
28	chr10:53972200-53973200	Weak transcription	Pancreas	Pancrea
29	chr10:53972200-53973200	Weak transcription	Skeletal Muscle Female	skeletal muscle
30	chr10:53972200-53975800	Weak transcription	Skeletal Muscle Male	skeletal muscle
31	chr10:53972200-53981800	Weak transcription	Aorta	Aorta
32	chr10:53972400-53972600	Flanking Active TSS	Liver	Liver
33	chr10:53972400-53972800	Flanking Active TSS	HepG2	liver
34	chr10:53972400-53972800	Weak transcription	NHLF	lung
35	chr10:53972400-53974000	Enhancers	A549	lung

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