Variant report

Variant	rs9880201
Chromosome Location	chr3:53731264-53731265
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs13319223	1.00[AMR][1000 genomes]
rs13320673	1.00[AFR][1000 genomes]
rs13353529	1.00[AMR][1000 genomes]
rs58288602	1.00[AMR][1000 genomes]
rs72977420	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72979962	1.00[AMR][1000 genomes]
rs72982040	1.00[AMR][1000 genomes]
rs72982042	1.00[AMR][1000 genomes]
rs72982043	1.00[AMR][1000 genomes]
rs72982055	1.00[AMR][1000 genomes]
rs893368	1.00[AMR][1000 genomes]
rs9311515	1.00[AMR][1000 genomes]
rs9654000	1.00[AMR][1000 genomes]
rs9849534	1.00[AMR][1000 genomes]
rs9858883	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9863133	1.00[AFR][1000 genomes]
rs9863776	1.00[AMR][1000 genomes]
rs9864070	1.00[AMR][1000 genomes]
rs9869321	1.00[AFR][1000 genomes]
rs9869730	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:15 , 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	chr3:53715600-53739600	Weak transcription	Brain Anterior Caudate	brain
3	chr3:53721000-53739800	Weak transcription	Brain Cingulate Gyrus	brain
4	chr3:53723200-53743400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
5	chr3:53724800-53739400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr3:53726600-53744000	Weak transcription	Duodenum Mucosa	Duodenum
7	chr3:53726800-53743400	Weak transcription	Spleen	Spleen
8	chr3:53727400-53731400	Enhancers	Primary hematopoietic stem cells short term culture	blood
9	chr3:53727800-53735400	Weak transcription	Fetal Lung	lung
10	chr3:53730400-53735600	Enhancers	Primary neutrophils fromperipheralblood	blood
11	chr3:53730400-53736200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
12	chr3:53730600-53731400	Enhancers	Fetal Stomach	stomach
13	chr3:53730600-53735600	Weak transcription	Fetal Intestine Large	intestine
14	chr3:53730800-53731600	Enhancers	Right Atrium	heart
15	chr3:53731000-53734600	Weak transcription	Fetal Intestine Small	intestine

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Input of quick search could be:

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

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