Variant report

Variant	rs12661982
Chromosome Location	chr6:114389207-114389208
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 75 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:72)

rs_ID	r²[population]
rs10456889	0.97[ASN][1000 genomes]
rs11153457	0.97[ASN][1000 genomes]
rs11153462	0.90[CHB][hapmap];0.91[ASN][1000 genomes]
rs11153463	0.91[ASN][1000 genomes]
rs1154897	0.87[ASN][1000 genomes]
rs1154898	0.87[ASN][1000 genomes]
rs11752866	0.97[ASN][1000 genomes]
rs11752970	0.95[ASN][1000 genomes]
rs11756975	0.97[ASN][1000 genomes]
rs11966557	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs12196433	1.00[ASN][1000 genomes]
rs12199104	0.97[ASN][1000 genomes]
rs12205029	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs12208567	0.82[ASN][1000 genomes]
rs12212081	0.97[ASN][1000 genomes]
rs12662029	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13194478	0.84[ASN][1000 genomes]
rs13195526	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs13197935	0.85[EUR][1000 genomes]
rs13199435	0.83[ASN][1000 genomes]
rs13201675	0.97[ASN][1000 genomes]
rs13203308	1.00[ASN][1000 genomes]
rs13203419	0.85[ASN][1000 genomes]
rs13210690	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13214829	0.83[ASN][1000 genomes]
rs1334901	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1334902	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1519685	0.84[ASN][1000 genomes]
rs1519686	0.83[ASN][1000 genomes]
rs1519687	0.83[ASN][1000 genomes]
rs1519688	0.84[ASN][1000 genomes]
rs17075821	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17075832	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17075854	0.80[AFR][1000 genomes];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17189832	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1879129	0.81[CHB][hapmap];0.80[JPT][hapmap];0.84[ASN][1000 genomes]
rs1973731	0.85[ASN][1000 genomes]
rs2050390	0.85[EUR][1000 genomes]
rs2292945	0.84[ASN][1000 genomes]
rs34298844	0.84[ASN][1000 genomes]
rs35080884	0.97[ASN][1000 genomes]
rs35166510	0.97[ASN][1000 genomes]
rs35275613	0.97[ASN][1000 genomes]
rs35680201	0.87[ASN][1000 genomes]
rs35877583	0.91[ASN][1000 genomes]
rs35944188	0.97[ASN][1000 genomes]
rs36013742	0.84[ASN][1000 genomes]
rs3897892	0.97[ASN][1000 genomes]
rs4311539	0.97[ASN][1000 genomes]
rs4371870	0.97[ASN][1000 genomes]
rs4463289	0.97[ASN][1000 genomes]
rs4604299	0.97[ASN][1000 genomes]
rs6568828	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6904640	0.80[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6916558	0.84[ASN][1000 genomes]
rs6919170	0.91[ASN][1000 genomes]
rs6924016	0.89[ASN][1000 genomes]
rs6924680	0.86[JPT][hapmap]
rs6926298	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6940137	0.87[ASN][1000 genomes]
rs71566758	0.97[ASN][1000 genomes]
rs71566761	1.00[ASN][1000 genomes]
rs7739113	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7739597	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs7740376	0.83[EUR][1000 genomes]
rs7742511	0.97[ASN][1000 genomes]
rs7744242	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7762446	0.84[ASN][1000 genomes]
rs7772117	0.91[ASN][1000 genomes]
rs7772231	1.00[CEU][hapmap];0.81[CHB][hapmap];0.84[ASN][1000 genomes]
rs875776	0.92[JPT][hapmap]
rs915202	0.91[CHB][hapmap];0.80[JPT][hapmap];0.91[ASN][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	nsv1021774	chr6:114063971-114407280	Enhancers Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	60 gene(s)	inside rSNPs	diseases
2	nsv538422	chr6:114063971-114407280	Genic enhancers Enhancers Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	60 gene(s)	inside rSNPs	diseases
3	nsv1024062	chr6:114311029-114679557	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	59 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:114370200-114389600	Weak transcription	Fetal Muscle Leg	muscle
2	chr6:114379600-114390400	Weak transcription	HepG2	liver
3	chr6:114383400-114390000	Weak transcription	Brain Germinal Matrix	brain
4	chr6:114384000-114389600	Weak transcription	Brain Inferior Temporal Lobe	brain
5	chr6:114384200-114389400	Weak transcription	Cortex derived primary cultured neurospheres	brain
6	chr6:114384200-114389400	Weak transcription	Brain Cingulate Gyrus	brain
7	chr6:114384200-114389600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
8	chr6:114384200-114389600	Weak transcription	Brain Substantia Nigra	brain
9	chr6:114384200-114390000	Weak transcription	Brain Hippocampus Middle	brain
10	chr6:114384200-114398200	Weak transcription	Brain Angular Gyrus	brain
11	chr6:114385600-114415800	Weak transcription	HSMM	muscle
12	chr6:114385800-114389600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr6:114386400-114396600	Weak transcription	HSMMtube	muscle
14	chr6:114386600-114397800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
15	chr6:114387200-114389600	Weak transcription	Brain Anterior Caudate	brain
16	chr6:114388400-114392400	Weak transcription	Psoas Muscle	Psoas
17	chr6:114388600-114389600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr6:114389000-114391800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
19	chr6:114389200-114389600	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

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