Variant report

Variant	rs11001460
Chromosome Location	chr10:54047702-54047703
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10824270	0.94[AMR][1000 genomes]
rs10824297	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10824310	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10824321	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11001376	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11001389	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11001394	0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11001421	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11001431	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11001455	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11001457	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11001485	0.83[EUR][1000 genomes]
rs12569472	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs16928725	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16928871	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3793783	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3829169	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3898630	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs57197814	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57497780	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs58198087	0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7085534	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7086430	0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7101052	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72787323	0.94[AMR][1000 genomes]
rs72787326	0.89[AMR][1000 genomes]
rs72787330	0.94[AMR][1000 genomes]
rs72787333	1.00[AMR][1000 genomes]
rs72787341	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7918883	1.00[AMR][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	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	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
3	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:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:54017400-54049600	Weak transcription	Left Ventricle	heart
2	chr10:54029800-54055400	Weak transcription	Fetal Lung	lung
3	chr10:54036000-54050400	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr10:54037800-54056000	Weak transcription	Fetal Muscle Leg	muscle
5	chr10:54040600-54057000	Weak transcription	Duodenum Smooth Muscle	Duodenum
6	chr10:54041000-54048600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
7	chr10:54041400-54068200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr10:54042800-54068200	Weak transcription	Aorta	Aorta
9	chr10:54043200-54047800	Weak transcription	Skeletal Muscle Female	skeletal muscle
10	chr10:54043200-54054600	Weak transcription	Skeletal Muscle Male	skeletal muscle
11	chr10:54043200-54060400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
12	chr10:54043200-54067800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
13	chr10:54044600-54048000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr10:54045000-54055600	Weak transcription	Fetal Muscle Trunk	muscle
15	chr10:54045000-54060400	Weak transcription	Psoas Muscle	Psoas
16	chr10:54045000-54068000	Weak transcription	HSMMtube	muscle
17	chr10:54047200-54048200	Enhancers	Duodenum Mucosa	Duodenum
18	chr10:54047200-54048400	Enhancers	Fetal Intestine Small	intestine
19	chr10:54047200-54048400	Enhancers	Rectal Mucosa Donor 29	rectum
20	chr10:54047200-54049600	Enhancers	Rectal Mucosa Donor 31	rectum
21	chr10:54047400-54048200	Enhancers	Fetal Intestine Large	intestine

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