Variant report

Variant	rs10962576
Chromosome Location	chr9:16770634-16770635
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs10116407	1.00[CEU][hapmap];1.00[TSI][hapmap]
rs10116469	1.00[CEU][hapmap];0.84[AMR][1000 genomes]
rs10117034	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10119731	0.91[TSI][hapmap]
rs10120138	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10120562	0.81[TSI][hapmap]
rs10122189	0.94[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10122736	0.86[CEU][hapmap];0.84[AMR][1000 genomes]
rs10122827	0.85[CEU][hapmap];1.00[CHB][hapmap];0.81[JPT][hapmap];0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10123118	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[CHD][hapmap];1.00[GIH][hapmap];0.88[JPT][hapmap];0.93[MEX][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10738457	1.00[CEU][hapmap];0.82[CHB][hapmap];0.88[EUR][1000 genomes]
rs10756810	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10810595	1.00[CEU][hapmap]
rs10810599	0.84[EUR][1000 genomes]
rs10810610	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs10810614	0.87[EUR][1000 genomes]
rs10810615	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10810617	1.00[CEU][hapmap];0.92[GIH][hapmap];0.88[JPT][hapmap];0.93[MEX][hapmap];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10810622	0.90[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10810626	0.88[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs10962543	0.87[CEU][hapmap]
rs10962556	0.82[EUR][1000 genomes]
rs10962569	1.00[CEU][hapmap];0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10962588	0.90[CHB][hapmap];0.88[JPT][hapmap];0.90[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10962592	1.00[CEU][hapmap];0.92[GIH][hapmap];0.83[JPT][hapmap];0.93[MEX][hapmap];0.91[TSI][hapmap];0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12238070	0.87[EUR][1000 genomes]
rs12341542	1.00[CEU][hapmap]
rs12344698	1.00[CEU][hapmap];0.82[CHB][hapmap];0.82[EUR][1000 genomes]
rs12375507	0.87[CEU][hapmap]
rs12377846	0.85[CEU][hapmap]
rs1361073	1.00[CEU][hapmap]
rs1856132	1.00[CEU][hapmap];0.82[CHB][hapmap];0.87[GIH][hapmap];1.00[TSI][hapmap]
rs1952688	0.84[AMR][1000 genomes]
rs1999214	0.82[EUR][1000 genomes]
rs2039185	1.00[CEU][hapmap];0.90[CHB][hapmap];0.88[JPT][hapmap];0.90[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs2150089	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.90[TSI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2282072	1.00[CEU][hapmap];0.82[CHB][hapmap];0.84[EUR][1000 genomes]
rs28584140	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs28626673	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3927536	0.83[JPT][hapmap]
rs5016914	0.84[EUR][1000 genomes]
rs7024466	1.00[CHB][hapmap];0.88[JPT][hapmap];0.94[ASN][1000 genomes]
rs7024720	0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73410488	0.85[AMR][1000 genomes]
rs73419969	0.82[EUR][1000 genomes]
rs7855044	0.87[EUR][1000 genomes]
rs7862734	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530933	chr9:16251206-16830845	Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv530934	chr9:16281246-16779432	Strong transcription Active TSS Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
3	nsv1032856	chr9:16465330-16773471	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Strong transcription Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
4	nsv540073	chr9:16465330-16773471	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
5	nsv1024799	chr9:16631890-17431827	Enhancers Flanking Active TSS Weak transcription Bivalent/Poised TSS Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
6	esv2758627	chr9:16641966-16809203	Active TSS Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
7	esv2759673	chr9:16641966-16809203	Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Strong transcription Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
8	nsv892650	chr9:16696187-16950860	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:16745400-16774800	Weak transcription	Osteobl	bone
2	chr9:16754000-16787000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
3	chr9:16755800-16778400	Weak transcription	Colon Smooth Muscle	Colon
4	chr9:16762600-16786800	Weak transcription	NHLF	lung
5	chr9:16766400-16771800	Enhancers	HUES48 Cell Line	embryonic stem cell
6	chr9:16767000-16775000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
7	chr9:16767200-16771200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr9:16767200-16778200	Weak transcription	NHDF-Ad	bronchial
9	chr9:16767600-16771000	Weak transcription	Fetal Lung	lung
10	chr9:16767600-16795400	Weak transcription	Fetal Muscle Leg	muscle
11	chr9:16768000-16795000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
12	chr9:16768200-16771800	Enhancers	iPS-15b Cell Line	embryonic stem cell
13	chr9:16768400-16771600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
14	chr9:16768400-16775000	Weak transcription	Stomach Smooth Muscle	stomach
15	chr9:16768600-16773200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
16	chr9:16769000-16772200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
17	chr9:16769200-16771600	Enhancers	H1 Cell Line	embryonic stem cell
18	chr9:16769400-16782600	Weak transcription	Fetal Kidney	kidney
19	chr9:16769400-16784800	Weak transcription	Fetal Intestine Large	intestine
20	chr9:16769600-16770800	Enhancers	iPS-20b Cell Line	embryonic stem cell
21	chr9:16769600-16771800	Enhancers	iPS-18 Cell Line	embryonic stem cell
22	chr9:16769800-16784000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
23	chr9:16769800-16787600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
24	chr9:16769800-16795400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
25	chr9:16770000-16773200	Weak transcription	HUES6 Cell Line	embryonic stem cell
26	chr9:16770000-16786600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
27	chr9:16770200-16772200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
28	chr9:16770200-16773000	Weak transcription	Ovary	ovary
29	chr9:16770200-16773600	Weak transcription	H9 Cell Line	embryonic stem cell
30	chr9:16770400-16770800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
31	chr9:16770400-16775600	Weak transcription	Fetal Stomach	stomach
32	chr9:16770600-16770800	Enhancers	HUES64 Cell Line	embryonic stem cell

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