Variant report

Variant	rs12209804
Chromosome Location	chr6:118424296-118424297
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:118423532..118426658-chr6:118429132..118430973,3	K562	blood:

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs11153721	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11756835	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12194270	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12203615	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12204646	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12206104	0.88[JPT][hapmap]
rs12206584	0.94[JPT][hapmap];0.86[ASN][1000 genomes]
rs12207545	0.84[JPT][hapmap]
rs12208433	0.83[JPT][hapmap]
rs12213071	0.89[JPT][hapmap];0.83[ASN][1000 genomes]
rs129630	0.80[CHB][hapmap];0.95[JPT][hapmap]
rs2051615	0.94[CEU][hapmap];1.00[CHB][hapmap];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs205959	1.00[JPT][hapmap]
rs205962	1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs205965	0.89[JPT][hapmap]
rs205966	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs205968	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs205971	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs205975	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs427474	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4283912	0.88[JPT][hapmap]
rs4360162	1.00[JPT][hapmap]
rs9320641	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9387558	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9387559	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9387560	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9401058	0.80[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530526	chr6:118027339-118718476	Weak transcription Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers 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:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:118422000-118424800	Enhancers	Brain Anterior Caudate	brain
2	chr6:118422000-118425600	Enhancers	Fetal Brain Male	brain
3	chr6:118422000-118426000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
4	chr6:118422200-118424400	Enhancers	Fetal Brain Female	brain
5	chr6:118422600-118427800	Weak transcription	Brain Inferior Temporal Lobe	brain
6	chr6:118422800-118424600	Weak transcription	Stomach Smooth Muscle	stomach
7	chr6:118423200-118424800	Enhancers	Left Ventricle	heart
8	chr6:118423400-118424600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
9	chr6:118423400-118424800	Enhancers	Brain Cingulate Gyrus	brain
10	chr6:118423400-118425000	Enhancers	Brain Germinal Matrix	brain
11	chr6:118423400-118425400	Enhancers	Cortex derived primary cultured neurospheres	brain
12	chr6:118423400-118425400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
13	chr6:118423400-118428000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
14	chr6:118423800-118424800	Weak transcription	Brain Hippocampus Middle	brain
15	chr6:118423800-118424800	Enhancers	Spleen	Spleen
16	chr6:118424000-118424400	Weak transcription	Right Ventricle	heart
17	chr6:118424000-118430600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr6:118424200-118424600	Weak transcription	Fetal Lung	lung

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