Variant report

Variant	rs55881044
Chromosome Location	chr3:53698030-53698031
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs33970402	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs55641883	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58036565	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58236730	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6765947	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72967859	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72967878	1.00[AMR][1000 genomes]
rs72978521	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72978524	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72978526	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72978528	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72978531	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72978534	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72978536	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73842064	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7633188	0.83[AFR][1000 genomes];1.00[AMR][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:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:53677600-53700000	Weak transcription	Duodenum Mucosa	Duodenum
2	chr3:53683200-53744200	Weak transcription	Brain Inferior Temporal Lobe	brain
3	chr3:53684800-53698600	Weak transcription	Duodenum Smooth Muscle	Duodenum
4	chr3:53689600-53707400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
5	chr3:53692000-53707600	Weak transcription	Brain Cingulate Gyrus	brain
6	chr3:53694200-53699000	Strong transcription	Fetal Intestine Small	intestine
7	chr3:53694200-53699200	Strong transcription	Pancreatic Islets	Pancreatic Islet
8	chr3:53694200-53700400	Strong transcription	Fetal Intestine Large	intestine
9	chr3:53694400-53701000	Weak transcription	Fetal Kidney	kidney
10	chr3:53695800-53698600	Strong transcription	Fetal Lung	lung
11	chr3:53696000-53700200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
12	chr3:53696800-53706600	Weak transcription	Stomach Smooth Muscle	stomach
13	chr3:53697400-53698800	ZNF genes & repeats	Spleen	Spleen
14	chr3:53697400-53699000	Enhancers	Placenta	Placenta
15	chr3:53697600-53702400	Weak transcription	Liver	Liver
16	chr3:53698000-53714000	Weak transcription	Brain Substantia Nigra	brain

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dbSNP/dbVar ID: rs12345 /nsv7879
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