Variant report

Variant	rs6807998
Chromosome Location	chr3:179663956-179663957
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs11917103	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11923858	0.94[CEU][hapmap];1.00[CHB][hapmap];0.99[EUR][1000 genomes]
rs13096827	0.97[EUR][1000 genomes]
rs1404272	1.00[CHB][hapmap]
rs17692126	1.00[CHB][hapmap];1.00[CHD][hapmap];0.96[TSI][hapmap]
rs17749273	0.92[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.91[TSI][hapmap];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs34638709	0.84[AFR][1000 genomes]
rs35040076	0.81[EUR][1000 genomes]
rs35068209	0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs35102009	0.80[EUR][1000 genomes]
rs35362105	0.97[EUR][1000 genomes]
rs62290481	0.97[EUR][1000 genomes]
rs6770479	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6792357	0.94[AFR][1000 genomes]
rs6795496	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73055498	0.82[AFR][1000 genomes]
rs9820001	0.93[EUR][1000 genomes]
rs9822592	1.00[CHD][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv829807	chr3:179527567-179745153	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv829808	chr3:179574614-179754321	Strong transcription Bivalent/Poised TSS Enhancers Weak transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:179656600-179664200	Strong transcription	Dnd41	blood
2	chr3:179660400-179667600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr3:179660600-179666400	Weak transcription	Fetal Kidney	kidney
4	chr3:179660600-179666600	Weak transcription	HUES6 Cell Line	embryonic stem cell
5	chr3:179660600-179666800	Weak transcription	HUES64 Cell Line	embryonic stem cell
6	chr3:179660600-179667400	Weak transcription	Thymus	Thymus
7	chr3:179660600-179680800	Weak transcription	Pancreas	Pancrea
8	chr3:179660800-179664800	Enhancers	Brain Substantia Nigra	brain
9	chr3:179661200-179664200	Enhancers	Brain Cingulate Gyrus	brain
10	chr3:179661200-179666000	Weak transcription	Fetal Thymus	thymus
11	chr3:179661200-179667400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
12	chr3:179661200-179671400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
13	chr3:179661400-179666200	Weak transcription	Brain Anterior Caudate	brain
14	chr3:179661600-179664200	Enhancers	Brain Angular Gyrus	brain
15	chr3:179663600-179664600	Weak transcription	Brain Inferior Temporal Lobe	brain
16	chr3:179663800-179664200	Weak transcription	Brain Hippocampus Middle	brain

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dbSNP/dbVar ID: rs12345 /nsv7879
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chromosomal regions: chr1:12345-34567

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