Variant report

Variant	rs6804675
Chromosome Location	chr3:53701137-53701138
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs11130376	0.87[CEU][hapmap];0.82[EUR][1000 genomes]
rs11707976	0.82[CEU][hapmap];1.00[CHB][hapmap];0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11709171	0.88[CEU][hapmap];1.00[CHB][hapmap];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11709565	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11711142	0.85[AFR][1000 genomes]
rs11712998	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11713811	1.00[CEU][hapmap];1.00[CHB][hapmap];0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11719110	0.94[CEU][hapmap];1.00[CHB][hapmap];0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11720002	0.87[YRI][hapmap]
rs11721212	1.00[CHB][hapmap]
rs11915489	1.00[CEU][hapmap];1.00[CHB][hapmap];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1460118	0.96[YRI][hapmap]
rs17237537	0.88[CEU][hapmap];1.00[CHB][hapmap];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs17309406	1.00[CHB][hapmap]
rs2232337	1.00[CHB][hapmap]
rs3774524	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6809164	0.90[YRI][hapmap];0.87[AFR][1000 genomes]
rs9819463	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[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	nsv1003621	chr3:53448934-54425322	Active TSS Strong transcription Bivalent Enhancer Weak transcription Flanking Active TSS Enhancers Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
2	nsv1001128	chr3:53659570-53927842	Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS Enhancers Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
3	nsv1013783	chr3:53694418-53934781	Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 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	chr3:53683200-53744200	Weak transcription	Brain Inferior Temporal Lobe	brain
2	chr3:53689600-53707400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
3	chr3:53692000-53707600	Weak transcription	Brain Cingulate Gyrus	brain
4	chr3:53696800-53706600	Weak transcription	Stomach Smooth Muscle	stomach
5	chr3:53697600-53702400	Weak transcription	Liver	Liver
6	chr3:53698000-53714000	Weak transcription	Brain Substantia Nigra	brain
7	chr3:53698800-53711200	Weak transcription	Spleen	Spleen
8	chr3:53700000-53703400	Strong transcription	Fetal Lung	lung
9	chr3:53700400-53701400	Genic enhancers	Fetal Intestine Large	intestine
10	chr3:53700400-53708600	Weak transcription	Pancreas	Pancrea
11	chr3:53700600-53702800	Weak transcription	Lung	lung
12	chr3:53700600-53709800	Weak transcription	Duodenum Mucosa	Duodenum
13	chr3:53700800-53701800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
14	chr3:53700800-53703000	Weak transcription	Pancreatic Islets	Pancreatic Islet
15	chr3:53700800-53704200	Weak transcription	Brain Angular Gyrus	brain
16	chr3:53701000-53701400	Enhancers	Fetal Kidney	kidney
17	chr3:53701000-53703200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
18	chr3:53701000-53705400	Weak transcription	Fetal Intestine Small	intestine

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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