Variant report

Variant	rs13113689
Chromosome Location	chr4:87675758-87675759
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 58 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs10000891	1.00[YRI][hapmap]
rs10001986	1.00[YRI][hapmap]
rs10008165	0.81[ASN][1000 genomes]
rs10016074	0.93[ASN][1000 genomes]
rs10019950	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10020590	1.00[YRI][hapmap]
rs10023163	1.00[YRI][hapmap]
rs10023787	0.84[JPT][hapmap]
rs10029565	1.00[YRI][hapmap]
rs10033029	1.00[YRI][hapmap]
rs1026861	0.81[ASN][1000 genomes]
rs1035191	1.00[CEU][hapmap];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];0.99[ASN][1000 genomes]
rs10470933	1.00[YRI][hapmap]
rs10516778	0.94[CHB][hapmap];0.95[JPT][hapmap];0.93[ASN][1000 genomes]
rs10516780	1.00[YRI][hapmap]
rs11930396	0.85[CEU][hapmap];0.89[JPT][hapmap];0.82[EUR][1000 genomes]
rs12331502	0.89[ASN][1000 genomes]
rs12498681	1.00[YRI][hapmap]
rs12499575	1.00[YRI][hapmap]
rs12503659	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12508339	1.00[YRI][hapmap]
rs12510802	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12512858	1.00[YRI][hapmap]
rs13111757	1.00[YRI][hapmap]
rs13136651	1.00[YRI][hapmap]
rs1420620	1.00[YRI][hapmap]
rs1420621	0.84[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.89[ASN][1000 genomes]
rs17012072	0.84[JPT][hapmap];0.81[ASN][1000 genomes]
rs17420607	0.94[CHB][hapmap];0.95[JPT][hapmap];0.93[ASN][1000 genomes]
rs17420966	0.83[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs17453839	0.80[JPT][hapmap]
rs17454154	0.93[ASN][1000 genomes]
rs17454432	1.00[YRI][hapmap]
rs17454655	1.00[YRI][hapmap]
rs17454662	0.92[ASN][1000 genomes]
rs17694112	0.84[JPT][hapmap]
rs2006842	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2054592	0.85[CHB][hapmap];0.95[JPT][hapmap];0.92[ASN][1000 genomes]
rs2054593	1.00[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2230600	0.84[JPT][hapmap];0.85[ASN][1000 genomes]
rs2287147	0.84[JPT][hapmap]
rs3775236	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3775238	0.89[ASN][1000 genomes]
rs3775239	0.95[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4263359	0.87[ASN][1000 genomes]
rs4693152	0.87[CEU][hapmap];0.90[JPT][hapmap];0.82[EUR][1000 genomes]
rs4693780	0.84[CHB][hapmap];0.94[JPT][hapmap];0.87[ASN][1000 genomes]
rs57954319	0.92[ASN][1000 genomes]
rs67867077	0.87[ASN][1000 genomes]
rs72665791	0.92[ASN][1000 genomes]
rs7658220	0.83[EUR][1000 genomes]
rs7688019	0.86[CEU][hapmap];0.89[JPT][hapmap];0.83[EUR][1000 genomes]
rs9307026	0.90[JPT][hapmap];0.83[EUR][1000 genomes]
rs969734	0.94[CHB][hapmap];0.95[JPT][hapmap];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	nsv594787	chr4:87221827-87888667	Enhancers Weak transcription Strong transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
2	esv2757071	chr4:87417291-87689533	Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	6 gene(s)	inside rSNPs	diseases
3	esv2759264	chr4:87417291-87689533	Strong transcription Weak transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	6 gene(s)	inside rSNPs	diseases
4	nsv830001	chr4:87585278-87748643	Enhancers Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region miRNA target site	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:73 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:87631200-87712200	Weak transcription	Aorta	Aorta
2	chr4:87635200-87737400	Weak transcription	Fetal Brain Male	brain
3	chr4:87636400-87683800	Weak transcription	Stomach Smooth Muscle	stomach
4	chr4:87639200-87688000	Weak transcription	Fetal Intestine Large	intestine
5	chr4:87639400-87739200	Weak transcription	A549	lung
6	chr4:87641800-87683400	Weak transcription	Duodenum Smooth Muscle	Duodenum
7	chr4:87642200-87692600	Weak transcription	NH-A	brain
8	chr4:87642400-87735800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
9	chr4:87642600-87692400	Weak transcription	Colon Smooth Muscle	Colon
10	chr4:87642600-87697600	Weak transcription	Brain Angular Gyrus	brain
11	chr4:87642600-87719200	Weak transcription	Pancreatic Islets	Pancreatic Islet
12	chr4:87644600-87680600	Weak transcription	NHLF	lung
13	chr4:87650400-87677400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
14	chr4:87651800-87676400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
15	chr4:87655600-87704400	Weak transcription	Hela-S3	cervix
16	chr4:87659000-87676400	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
17	chr4:87661600-87680400	Weak transcription	Brain Substantia Nigra	brain
18	chr4:87661600-87680600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
19	chr4:87661600-87683200	Weak transcription	H9 Cell Line	embryonic stem cell
20	chr4:87661600-87710200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
21	chr4:87661600-87711400	Weak transcription	Brain Germinal Matrix	brain
22	chr4:87661600-87712000	Weak transcription	Esophagus	oesophagus
23	chr4:87661600-87737800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
24	chr4:87661800-87676600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
25	chr4:87661800-87683000	Weak transcription	Fetal Stomach	stomach
26	chr4:87661800-87683200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
27	chr4:87661800-87683800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr4:87661800-87708000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
29	chr4:87661800-87712000	Weak transcription	Fetal Intestine Small	intestine
30	chr4:87661800-87728800	Weak transcription	Pancreas	Pancrea
31	chr4:87663000-87683600	Weak transcription	Fetal Brain Female	brain
32	chr4:87663000-87711400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr4:87665000-87692400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
34	chr4:87665800-87676000	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
35	chr4:87668000-87679400	Weak transcription	Osteobl	bone
36	chr4:87669200-87690800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
37	chr4:87670400-87676000	Strong transcription	HUES64 Cell Line	embryonic stem cell
38	chr4:87670400-87676200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
39	chr4:87670800-87676200	Strong transcription	NHDF-Ad	bronchial
40	chr4:87671800-87675800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
41	chr4:87671800-87713000	Weak transcription	HSMMtube	muscle
42	chr4:87672000-87683600	Weak transcription	H1 Cell Line	embryonic stem cell
43	chr4:87672000-87689000	Weak transcription	Brain Cingulate Gyrus	brain
44	chr4:87672000-87712200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
45	chr4:87672200-87683600	Weak transcription	Fetal Kidney	kidney
46	chr4:87672600-87683600	Weak transcription	Brain Inferior Temporal Lobe	brain
47	chr4:87672600-87683800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
48	chr4:87672800-87679800	Weak transcription	Adipose Nuclei	Adipose
49	chr4:87672800-87679800	Weak transcription	Brain Anterior Caudate	brain
50	chr4:87672800-87680600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung

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