Variant report

Variant	rs72964394
Chromosome Location	chr3:53585682-53585683
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:12)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

No data

(count:12 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:53557133..53558242-chr3:53585061..53585903,3	MCF-7	breast:
2	chr3:53584851..53587077-chr3:53602555..53604461,2	MCF-7	breast:
3	chr3:53577328..53580007-chr3:53582847..53586220,5	MCF-7	breast:
4	chr3:53552367..53553946-chr3:53584985..53585902,8	MCF-7	breast:
5	chr3:53552361..53553110-chr3:53585085..53585894,4	MCF-7	breast:
6	chr3:53179051..53179721-chr3:53585086..53585781,2	MCF-7	breast:
7	chr3:53552476..53553069-chr3:53585002..53585791,2	MCF-7	breast:
8	chr3:53553135..53554029-chr3:53584915..53585873,10	MCF-7	breast:
9	chr3:53583822..53587338-chr3:53599024..53602468,3	MCF-7	breast:
10	chr3:53584684..53586821-chr3:53697849..53700213,2	MCF-7	breast:
11	chr3:53584946..53585871-chr3:53698734..53699592,4	MCF-7	breast:
12	chr3:53552361..53552892-chr3:53585085..53585894,2	MCF-7	breast:

No data

No data

No data

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs11921961	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11925433	1.00[AMR][1000 genomes]
rs17030942	1.00[AMR][1000 genomes]
rs17053116	1.00[AMR][1000 genomes]
rs58338691	1.00[AMR][1000 genomes]
rs58488663	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59254994	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59437060	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60350276	1.00[AMR][1000 genomes]
rs60675461	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61299945	1.00[AMR][1000 genomes]
rs72954817	1.00[AMR][1000 genomes]
rs72954820	1.00[AMR][1000 genomes]
rs72954825	1.00[AMR][1000 genomes]
rs72954827	1.00[AMR][1000 genomes]
rs72954837	1.00[AMR][1000 genomes]
rs72964389	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:1 , 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

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:53560600-53587000	Weak transcription	Duodenum Mucosa	Duodenum
2	chr3:53579000-53592000	Weak transcription	Pancreatic Islets	Pancreatic Islet
3	chr3:53580000-53589600	Weak transcription	HUES48 Cell Line	embryonic stem cell
4	chr3:53580400-53587400	Weak transcription	Rectal Smooth Muscle	rectum
5	chr3:53581400-53587200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr3:53583000-53585800	Weak transcription	Gastric	stomach
7	chr3:53583400-53586200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
8	chr3:53584000-53586400	Enhancers	Breast Myoepithelial Primary Cells	Breast
9	chr3:53584400-53587200	Weak transcription	Pancreas	Pancrea
10	chr3:53584600-53587000	Weak transcription	Fetal Lung	lung
11	chr3:53584600-53587200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr3:53584800-53592600	Weak transcription	Colon Smooth Muscle	Colon
13	chr3:53585200-53586200	Enhancers	Fetal Intestine Large	intestine
14	chr3:53585400-53586000	Enhancers	Lung	lung
15	chr3:53585600-53586000	Enhancers	Brain Inferior Temporal Lobe	brain
16	chr3:53585600-53586400	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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