Variant report

Variant	rs6568828
Chromosome Location	chr6:114384701-114384702
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 75 )
Associated
traits (count: 1 )

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[CHD][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]
rs12661982	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12662029	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[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	0.87[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];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13214829	0.83[ASN][1000 genomes]
rs1334901	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.86[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];0.92[YRI][hapmap];0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1334902	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];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[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.81[LWK][hapmap];1.00[MEX][hapmap];0.95[MKK][hapmap];1.00[TSI][hapmap];0.87[YRI][hapmap];0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17075832	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17075854	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17189832	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs1879129	0.84[ASN][1000 genomes]
rs1973731	0.85[ASN][1000 genomes]
rs2050390	0.87[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]
rs6904640	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6916558	0.84[ASN][1000 genomes]
rs6919170	0.91[ASN][1000 genomes]
rs6924016	0.91[CHD][hapmap];0.89[ASN][1000 genomes]
rs6924680	0.86[JPT][hapmap]
rs6926298	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];1.00[ASN][1000 genomes]
rs6940137	0.87[ASN][1000 genomes]
rs71566758	0.97[ASN][1000 genomes]
rs71566761	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7739113	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7739597	1.00[CHB][hapmap];0.87[CHD][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs7740376	0.85[EUR][1000 genomes]
rs7742511	0.97[ASN][1000 genomes]
rs7744242	0.96[AMR][1000 genomes];0.99[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];0.84[ASN][1000 genomes]
rs875776	0.92[JPT][hapmap]
rs915202	0.90[CHB][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

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6568828	FAM162B	cis	parietal	SCAN

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:114363800-114385000	Weak transcription	Muscle Satellite Cultured Cells	--
2	chr6:114370000-114387000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr6:114370200-114389600	Weak transcription	Fetal Muscle Leg	muscle
4	chr6:114371400-114388200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr6:114379400-114384800	Weak transcription	HSMMtube	muscle
6	chr6:114379600-114390400	Weak transcription	HepG2	liver
7	chr6:114380400-114384800	Weak transcription	HSMM	muscle
8	chr6:114380800-114388000	Weak transcription	Psoas Muscle	Psoas
9	chr6:114381200-114386400	Enhancers	Primary monocytes fromperipheralblood	blood
10	chr6:114382600-114384800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
11	chr6:114382600-114385000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
12	chr6:114383400-114390000	Weak transcription	Brain Germinal Matrix	brain
13	chr6:114384000-114389600	Weak transcription	Brain Inferior Temporal Lobe	brain
14	chr6:114384200-114385800	Enhancers	Fetal Heart	heart
15	chr6:114384200-114389400	Weak transcription	Cortex derived primary cultured neurospheres	brain
16	chr6:114384200-114389400	Weak transcription	Brain Cingulate Gyrus	brain
17	chr6:114384200-114389600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
18	chr6:114384200-114389600	Weak transcription	Brain Substantia Nigra	brain
19	chr6:114384200-114390000	Weak transcription	Brain Hippocampus Middle	brain
20	chr6:114384200-114398200	Weak transcription	Brain Angular Gyrus	brain
21	chr6:114384600-114385000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
22	chr6:114384600-114385200	Enhancers	Brain Anterior Caudate	brain

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