Variant report

Variant	rs3798983
Chromosome Location	chr6:69688098-69688099
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:69676667..69679065-chr6:69686722..69689222,2	K562	blood:
2	chr6:69676667..69679537-chr6:69686722..69688400,2	K562	blood:

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs12665384	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12665411	1.00[CEU][hapmap];0.87[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1336641	0.83[JPT][hapmap]
rs1336645	0.82[JPT][hapmap]
rs1336647	0.81[JPT][hapmap]
rs1336650	0.82[JPT][hapmap]
rs1336654	0.91[JPT][hapmap];0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1415032	1.00[CEU][hapmap];0.91[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1556754	0.83[JPT][hapmap]
rs1572940	0.87[AFR][1000 genomes]
rs1932774	0.80[JPT][hapmap]
rs1953614	0.95[AMR][1000 genomes];0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2880587	0.82[JPT][hapmap]
rs3757049	0.91[JPT][hapmap];1.00[YRI][hapmap]
rs3798969	0.83[JPT][hapmap]
rs3798971	1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs3798974	0.82[JPT][hapmap]
rs3798982	1.00[CEU][hapmap];0.96[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3798990	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3798991	0.83[JPT][hapmap]
rs3798992	0.82[JPT][hapmap]
rs3798993	0.82[JPT][hapmap]
rs3798995	0.91[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3798997	0.90[JPT][hapmap];1.00[YRI][hapmap];0.91[AMR][1000 genomes];0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3799019	0.91[JPT][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes]
rs3823064	0.82[JPT][hapmap]
rs6899467	0.83[JPT][hapmap]
rs72906776	0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9360369	0.90[JPT][hapmap];0.91[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9454661	0.82[JPT][hapmap]
rs945528	0.83[JPT][hapmap]
rs960991	1.00[CEU][hapmap];0.87[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9718113	0.81[AFR][1000 genomes];0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.80[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv5338	chr6:69670701-69701360	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
2	nsv603620	chr6:69684850-69691596	Weak transcription Enhancers Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
3	nsv886137	chr6:69684850-70095690	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	esv3522682	chr6:69686981-69692879	Weak transcription Strong transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
5	esv3522683	chr6:69686981-69692879	Weak transcription Enhancers Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
6	esv18272	chr6:69687686-69691720	Weak transcription Strong transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
7	nsv499697	chr6:69687694-69691833	Weak transcription Strong transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
8	esv2421691	chr6:69687698-69691368	Weak transcription Strong transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:69685000-69700000	Weak transcription	Brain Angular Gyrus	brain
2	chr6:69685400-69700400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr6:69685800-69758800	Weak transcription	Fetal Brain Male	brain
4	chr6:69686000-69695400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
5	chr6:69686000-69700000	Weak transcription	Brain Hippocampus Middle	brain
6	chr6:69686000-69700400	Weak transcription	Brain Anterior Caudate	brain
7	chr6:69686000-69700600	Weak transcription	Brain Inferior Temporal Lobe	brain
8	chr6:69686200-69695200	Weak transcription	Brain Cingulate Gyrus	brain
9	chr6:69686200-69703400	Weak transcription	Cortex derived primary cultured neurospheres	brain
10	chr6:69686600-69700200	Weak transcription	Brain Substantia Nigra	brain
11	chr6:69686800-69706200	Weak transcription	Fetal Lung	lung
12	chr6:69687600-69688400	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
13	chr6:69687800-69700400	Weak transcription	Brain Germinal Matrix	brain

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