Variant report

Variant	rs9869887
Chromosome Location	chr3:115723132-115723133
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:115722266..115725111-chr3:115746899..115749615,2	K562	blood:

Extended variants
information (count: 68 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:63)

rs_ID	r²[population]
rs11918028	1.00[CEU][hapmap];0.94[CHB][hapmap];0.93[JPT][hapmap];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12485818	0.88[CEU][hapmap];0.93[CHD][hapmap];0.84[GIH][hapmap];0.82[TSI][hapmap];0.82[EUR][1000 genomes]
rs12495426	0.88[CEU][hapmap];0.93[CHD][hapmap];0.84[GIH][hapmap];0.82[TSI][hapmap];0.82[EUR][1000 genomes]
rs13065579	0.88[CEU][hapmap];0.81[EUR][1000 genomes]
rs13086615	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1920382	0.92[CEU][hapmap];0.82[CHB][hapmap];0.93[CHD][hapmap];0.81[GIH][hapmap];0.83[MEX][hapmap];0.92[TSI][hapmap];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1920383	0.92[CEU][hapmap];0.82[CHB][hapmap];0.93[CHD][hapmap];0.81[GIH][hapmap];0.86[JPT][hapmap];0.92[TSI][hapmap];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1920384	0.88[CEU][hapmap];0.81[CHB][hapmap];0.93[CHD][hapmap];0.84[GIH][hapmap];0.87[TSI][hapmap];0.87[EUR][1000 genomes]
rs1920385	0.84[EUR][1000 genomes]
rs1920388	1.00[ASW][hapmap];0.96[CEU][hapmap];0.88[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.81[LWK][hapmap];0.96[MEX][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2141626	0.88[CEU][hapmap];0.83[EUR][1000 genomes]
rs2141627	0.83[EUR][1000 genomes]
rs2141629	0.88[CEU][hapmap];0.84[EUR][1000 genomes]
rs35764849	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4131452	0.81[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4131453	0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4240163	0.84[ASN][1000 genomes]
rs4240164	0.93[ASW][hapmap];0.85[CEU][hapmap];0.94[CHB][hapmap];1.00[CHD][hapmap];0.92[GIH][hapmap];0.87[JPT][hapmap];0.92[MEX][hapmap];0.89[MKK][hapmap];0.95[TSI][hapmap];0.95[YRI][hapmap];0.81[AFR][1000 genomes];0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4240165	0.82[AFR][1000 genomes];0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4240166	0.84[CEU][hapmap];0.94[CHB][hapmap];0.87[JPT][hapmap];0.84[ASN][1000 genomes]
rs4286426	0.81[CEU][hapmap];0.94[CHB][hapmap];1.00[CHD][hapmap];0.92[GIH][hapmap];0.93[JPT][hapmap];0.84[MEX][hapmap];0.82[TSI][hapmap];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4315682	0.84[CEU][hapmap];0.94[CHB][hapmap];0.85[JPT][hapmap];0.81[ASN][1000 genomes]
rs4378955	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4398428	0.92[CEU][hapmap];0.94[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.92[MEX][hapmap];0.87[TSI][hapmap];0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4399891	0.84[CEU][hapmap];0.94[CHB][hapmap];0.93[JPT][hapmap];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4426677	0.85[CEU][hapmap];0.94[CHB][hapmap];0.87[JPT][hapmap];0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4518124	0.81[CEU][hapmap];0.94[CHB][hapmap];1.00[CHD][hapmap];0.81[GIH][hapmap];0.93[JPT][hapmap];0.85[ASN][1000 genomes]
rs4599302	0.85[ASN][1000 genomes]
rs4611819	0.85[CEU][hapmap];0.94[CHB][hapmap];1.00[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap];0.95[TSI][hapmap];0.82[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4831218	0.81[ASW][hapmap];0.81[CEU][hapmap];0.94[CHB][hapmap];0.97[CHD][hapmap];0.84[GIH][hapmap];0.93[JPT][hapmap];0.83[MEX][hapmap];0.85[MKK][hapmap];0.85[TSI][hapmap];0.85[ASN][1000 genomes]
rs4831219	0.81[CEU][hapmap];0.94[CHB][hapmap];1.00[CHD][hapmap];0.86[GIH][hapmap];0.93[JPT][hapmap];0.82[TSI][hapmap];0.85[ASN][1000 genomes]
rs4831220	0.84[ASN][1000 genomes]
rs4831221	0.83[CEU][hapmap];0.94[CHB][hapmap];0.87[JPT][hapmap];0.89[YRI][hapmap];0.82[AFR][1000 genomes];0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4831222	0.85[CEU][hapmap];0.94[CHB][hapmap];0.87[JPT][hapmap];0.95[YRI][hapmap];0.82[AFR][1000 genomes];0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4831223	0.94[CHB][hapmap];0.93[JPT][hapmap];0.86[ASN][1000 genomes]
rs6438296	0.96[CEU][hapmap];0.88[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];0.87[TSI][hapmap];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6776244	0.84[CEU][hapmap];0.93[CHD][hapmap]
rs6777196	0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6787687	1.00[ASW][hapmap];0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.84[MKK][hapmap];0.95[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6787872	0.93[ASW][hapmap];0.92[CEU][hapmap];0.82[CHB][hapmap];1.00[CHD][hapmap];0.84[GIH][hapmap];0.86[JPT][hapmap];0.85[LWK][hapmap];0.92[MEX][hapmap];0.94[MKK][hapmap];0.95[TSI][hapmap];0.89[YRI][hapmap];0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6789600	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6790290	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6795318	0.92[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6804278	0.86[ASN][1000 genomes]
rs6807809	0.96[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap]
rs7610371	0.88[CEU][hapmap];0.93[CHD][hapmap];0.87[GIH][hapmap];0.82[TSI][hapmap];0.82[EUR][1000 genomes]
rs7625191	0.93[ASW][hapmap];0.96[CEU][hapmap];0.88[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];0.92[JPT][hapmap];0.88[LWK][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];0.97[TSI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7632252	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9289033	0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9289034	0.86[ASW][hapmap];0.81[CEU][hapmap];0.94[CHB][hapmap];0.96[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];0.82[TSI][hapmap];0.97[ASN][1000 genomes]
rs9289039	0.87[EUR][1000 genomes]
rs9289040	0.88[CEU][hapmap];0.90[CHD][hapmap];0.84[GIH][hapmap];0.82[TSI][hapmap];0.83[EUR][1000 genomes]
rs9813153	0.81[CEU][hapmap];0.94[CHB][hapmap];0.87[JPT][hapmap];0.85[ASN][1000 genomes]
rs9815418	0.82[ASN][1000 genomes]
rs9833319	0.82[EUR][1000 genomes]
rs9840787	0.81[CEU][hapmap];0.94[CHB][hapmap];0.96[CHD][hapmap];0.84[GIH][hapmap];0.87[JPT][hapmap];0.85[TSI][hapmap];0.81[ASN][1000 genomes]
rs9845521	0.90[CEU][hapmap];0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9848298	0.81[ASW][hapmap];0.88[CEU][hapmap];0.82[CHB][hapmap];1.00[CHD][hapmap];0.84[GIH][hapmap];0.86[JPT][hapmap];0.88[LWK][hapmap];0.92[MEX][hapmap];0.97[MKK][hapmap];0.92[TSI][hapmap];0.89[YRI][hapmap];0.89[AFR][1000 genomes];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9850406	0.85[ASN][1000 genomes]
rs9863087	0.93[ASW][hapmap];0.92[CEU][hapmap];0.82[CHB][hapmap];1.00[CHD][hapmap];0.81[GIH][hapmap];0.86[JPT][hapmap];0.92[MEX][hapmap];0.92[TSI][hapmap];0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9872913	0.81[CEU][hapmap];0.94[CHB][hapmap];0.87[JPT][hapmap];0.84[ASN][1000 genomes]
rs9873260	0.83[ASN][1000 genomes]
rs9878286	0.86[CHD][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv931948	chr3:114884574-115802562	Bivalent Enhancer Enhancers Flanking Active TSS Strong transcription Weak transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
2	esv2760762	chr3:115476222-115807650	Flanking Active TSS Weak transcription Bivalent Enhancer Enhancers Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
3	nsv829685	chr3:115643521-115812913	Flanking Active TSS Weak transcription Enhancers Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
4	nsv1012260	chr3:115680931-115935968	Enhancers Active TSS Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
5	esv2756413	chr3:115721898-115908480	Enhancers Weak transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:115719400-115723800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr3:115719400-115724200	Weak transcription	Brain Anterior Caudate	brain
3	chr3:115719600-115742600	Weak transcription	HUES6 Cell Line	embryonic stem cell
4	chr3:115719800-115732000	Weak transcription	Hela-S3	cervix
5	chr3:115720000-115723800	Weak transcription	K562	blood
6	chr3:115720000-115724000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
7	chr3:115720000-115726800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr3:115720400-115724000	Weak transcription	Colon Smooth Muscle	Colon
9	chr3:115720600-115724000	Weak transcription	NHLF	lung
10	chr3:115720600-115724200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr3:115720800-115724200	Weak transcription	HSMMtube	muscle
12	chr3:115721200-115723600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
13	chr3:115721400-115723800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
14	chr3:115721400-115723800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr3:115721400-115723800	Weak transcription	HSMM	muscle
16	chr3:115721400-115724200	Weak transcription	Fetal Muscle Leg	muscle
17	chr3:115721600-115723600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
18	chr3:115721600-115723600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
19	chr3:115721600-115723600	Weak transcription	NH-A	brain
20	chr3:115721600-115723600	Weak transcription	NHDF-Ad	bronchial
21	chr3:115721600-115723600	Weak transcription	NHEK	skin
22	chr3:115721600-115723800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
23	chr3:115721600-115723800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
24	chr3:115721600-115724200	Weak transcription	Fetal Brain Male	brain
25	chr3:115721600-115724400	Weak transcription	Brain Inferior Temporal Lobe	brain
26	chr3:115721800-115723600	Weak transcription	Muscle Satellite Cultured Cells	--
27	chr3:115721800-115723600	Weak transcription	HMEC	breast
28	chr3:115721800-115723600	Weak transcription	Osteobl	bone
29	chr3:115722800-115723600	Weak transcription	Pancreatic Islets	Pancreatic Islet
30	chr3:115722800-115739400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
31	chr3:115723000-115723400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

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