Variant report

Variant	rs9995956
Chromosome Location	chr4:148790373-148790374
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 87 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:81)

rs_ID	r²[population]
rs10000278	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10001688	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs10001756	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs10003507	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs10004138	1.00[CEU][hapmap];0.82[CHB][hapmap];0.84[JPT][hapmap];0.90[EUR][1000 genomes]
rs10004691	0.92[EUR][1000 genomes]
rs10004792	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs10014593	0.88[EUR][1000 genomes]
rs10014696	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10015875	0.94[EUR][1000 genomes]
rs10018820	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs10018903	0.82[CEU][hapmap]
rs10025069	1.00[CEU][hapmap];0.87[CHB][hapmap];0.94[EUR][1000 genomes]
rs10026985	1.00[CEU][hapmap];0.88[CHB][hapmap];0.89[JPT][hapmap];0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10030358	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs10049932	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs11099671	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs11099672	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs11734553	0.82[EUR][1000 genomes]
rs11735412	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs11737346	0.85[JPT][hapmap]
rs12331562	1.00[CEU][hapmap];0.95[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12509618	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs12513192	1.00[CEU][hapmap];0.82[CHB][hapmap];0.92[EUR][1000 genomes]
rs12641291	0.82[CEU][hapmap]
rs12643550	0.85[EUR][1000 genomes]
rs12650219	0.82[CEU][hapmap]
rs13129325	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13151898	0.92[EUR][1000 genomes]
rs1369958	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs17024037	1.00[CEU][hapmap];0.82[CHB][hapmap];0.84[JPT][hapmap];0.92[EUR][1000 genomes]
rs17613979	1.00[CEU][hapmap];0.89[CHB][hapmap];0.84[JPT][hapmap];0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs17614025	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs17676080	1.00[CEU][hapmap];0.88[CHB][hapmap];0.84[JPT][hapmap];0.94[EUR][1000 genomes]
rs2043643	0.92[EUR][1000 genomes]
rs2043644	0.82[CEU][hapmap]
rs2043645	0.92[EUR][1000 genomes]
rs28576385	0.94[EUR][1000 genomes]
rs28614116	0.92[EUR][1000 genomes]
rs2884400	0.90[EUR][1000 genomes]
rs34970355	0.82[EUR][1000 genomes]
rs35243600	0.92[EUR][1000 genomes]
rs35810358	0.98[EUR][1000 genomes]
rs35899247	0.92[EUR][1000 genomes]
rs3893175	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs3990920	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs4240338	0.82[CEU][hapmap]
rs4240339	0.82[CEU][hapmap]
rs4240341	1.00[CEU][hapmap];0.90[JPT][hapmap];0.98[EUR][1000 genomes]
rs4491995	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs4571312	1.00[CEU][hapmap];0.83[CHB][hapmap];0.92[EUR][1000 genomes]
rs4627844	0.82[EUR][1000 genomes]
rs4835103	0.82[CEU][hapmap];0.83[CHB][hapmap];0.84[JPT][hapmap];0.89[EUR][1000 genomes]
rs4835109	0.82[CEU][hapmap];0.85[EUR][1000 genomes]
rs4835110	0.85[EUR][1000 genomes]
rs4835469	0.82[CEU][hapmap]
rs55820558	0.92[EUR][1000 genomes]
rs62330732	0.87[EUR][1000 genomes]
rs62330735	0.87[EUR][1000 genomes]
rs62330737	0.84[EUR][1000 genomes]
rs6535569	0.82[EUR][1000 genomes]
rs6811769	0.82[EUR][1000 genomes]
rs6818371	1.00[CEU][hapmap];0.87[CHB][hapmap];0.84[JPT][hapmap];0.92[EUR][1000 genomes]
rs6832527	0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6840771	1.00[CEU][hapmap];0.82[CHB][hapmap];0.84[JPT][hapmap];0.92[EUR][1000 genomes]
rs6843392	1.00[CEU][hapmap];0.88[CHB][hapmap];0.84[JPT][hapmap];0.94[EUR][1000 genomes]
rs6856273	1.00[CEU][hapmap];0.83[CHB][hapmap];0.90[EUR][1000 genomes]
rs7656471	0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7660508	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs7666127	1.00[CEU][hapmap];0.82[EUR][1000 genomes]
rs7677632	0.92[EUR][1000 genomes]
rs7698670	0.94[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs893022	0.82[CEU][hapmap]
rs893033	1.00[CEU][hapmap];0.81[CHB][hapmap];0.92[EUR][1000 genomes]
rs9991741	1.00[CEU][hapmap];0.90[JPT][hapmap];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9994650	1.00[CEU][hapmap];0.89[CHB][hapmap];0.94[EUR][1000 genomes]
rs9995896	0.82[CEU][hapmap]
rs9996108	0.82[CEU][hapmap]
rs9996209	0.82[EUR][1000 genomes]
rs9997027	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9999321	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1028958	chr4:148377752-148793485	Weak transcription Strong transcription Enhancers Active TSS Genic enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	nsv498083	chr4:148519825-148917583	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	20 gene(s)	inside rSNPs	diseases
3	nsv880243	chr4:148735644-148879583	Weak transcription Enhancers Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	nsv880244	chr4:148764252-148920089	Strong transcription Enhancers Genic enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
5	nsv1029845	chr4:148766290-148916437	Weak transcription Flanking Active TSS Genic enhancers Enhancers Strong transcription ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
6	nsv1030001	chr4:148773479-148916437	Genic enhancers Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Weak transcription Bivalent Enhancer Transcr. at gene 5' and 3' Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:75 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:148763200-148796200	Weak transcription	Monocytes-CD14+_RO01746	blood
2	chr4:148766600-148796200	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr4:148767600-148796400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
4	chr4:148768400-148815600	Weak transcription	Primary T cells from cord blood	blood
5	chr4:148770400-148796200	Weak transcription	Fetal Kidney	kidney
6	chr4:148772000-148806000	Weak transcription	Fetal Thymus	thymus
7	chr4:148777000-148796200	Weak transcription	Sigmoid Colon	Sigmoid Colon
8	chr4:148777000-148823000	Weak transcription	Small Intestine	intestine
9	chr4:148777400-148796600	Weak transcription	Primary monocytes fromperipheralblood	blood
10	chr4:148777800-148796200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
11	chr4:148779800-148793800	Weak transcription	Fetal Lung	lung
12	chr4:148782000-148799400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
13	chr4:148783000-148796200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
14	chr4:148783000-148796200	Weak transcription	Thymus	Thymus
15	chr4:148783400-148796400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
16	chr4:148783400-148796400	Weak transcription	Lung	lung
17	chr4:148783600-148796200	Weak transcription	Esophagus	oesophagus
18	chr4:148783600-148796200	Weak transcription	Placenta	Placenta
19	chr4:148783800-148796200	Weak transcription	Fetal Intestine Large	intestine
20	chr4:148783800-148796200	Weak transcription	Gastric	stomach
21	chr4:148783800-148796200	Weak transcription	Right Ventricle	heart
22	chr4:148784400-148810800	Weak transcription	Fetal Heart	heart
23	chr4:148784600-148796400	Weak transcription	Duodenum Mucosa	Duodenum
24	chr4:148785400-148796200	Weak transcription	GM12878-XiMat	blood
25	chr4:148785600-148796200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
26	chr4:148786000-148804000	Weak transcription	Psoas Muscle	Psoas
27	chr4:148786000-148861400	Weak transcription	Pancreas	Pancrea
28	chr4:148786400-148796200	Weak transcription	Skeletal Muscle Male	skeletal muscle
29	chr4:148787000-148794000	Weak transcription	Stomach Smooth Muscle	stomach
30	chr4:148787200-148790400	Strong transcription	Fetal Muscle Trunk	muscle
31	chr4:148787400-148795600	Weak transcription	NH-A	brain
32	chr4:148787400-148796200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
33	chr4:148787400-148800400	Weak transcription	NHEK	skin
34	chr4:148787600-148796200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
35	chr4:148787600-148796200	Weak transcription	Osteobl	bone
36	chr4:148787600-148801600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
37	chr4:148787800-148790400	Strong transcription	HSMMtube	muscle
38	chr4:148787800-148791000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
39	chr4:148787800-148793600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
40	chr4:148788000-148790400	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
41	chr4:148788000-148790400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
42	chr4:148788000-148790600	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
43	chr4:148788000-148796200	Weak transcription	HUVEC	blood vessel
44	chr4:148788000-148798400	Weak transcription	Brain Substantia Nigra	brain
45	chr4:148788000-148800200	Weak transcription	Brain Hippocampus Middle	brain
46	chr4:148788200-148791000	Strong transcription	NHDF-Ad	bronchial
47	chr4:148788400-148790400	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
48	chr4:148788400-148790400	Strong transcription	Aorta	Aorta
49	chr4:148788400-148790400	Strong transcription	Fetal Stomach	stomach
50	chr4:148788400-148790600	Strong transcription	NHLF	lung

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