Variant report

Variant	rs3774442
Chromosome Location	chr3:53587059-53587060
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:53584851..53587077-chr3:53602555..53604461,2	MCF-7	breast:
2	chr3:53583822..53587338-chr3:53599024..53602468,3	MCF-7	breast:
3	chr3:53586030..53587817-chr3:53589041..53592025,2	MCF-7	breast:

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

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs1002578	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs10440150	1.00[CHB][hapmap];0.88[JPT][hapmap];0.98[ASN][1000 genomes]
rs1123895	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs13323471	0.85[CHB][hapmap];0.88[JPT][hapmap];0.98[ASN][1000 genomes]
rs17053146	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.88[JPT][hapmap];0.98[ASN][1000 genomes]
rs17053233	1.00[TSI][hapmap]
rs17053265	1.00[TSI][hapmap]
rs17053279	1.00[TSI][hapmap]
rs2109182	1.00[TSI][hapmap]
rs28620592	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3774427	1.00[TSI][hapmap]
rs3774429	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.88[JPT][hapmap];1.00[TSI][hapmap];0.98[ASN][1000 genomes]
rs3774430	1.00[CHB][hapmap];1.00[CHD][hapmap];0.88[JPT][hapmap];0.95[ASN][1000 genomes]
rs3774431	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs3774443	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap];1.00[TSI][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3774447	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3821845	0.98[ASN][1000 genomes]
rs9311503	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs9311504	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs9821489	0.85[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9865394	0.98[ASN][1000 genomes]
rs9882823	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][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:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:53579000-53592000	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr3:53580000-53589600	Weak transcription	HUES48 Cell Line	embryonic stem cell
3	chr3:53580400-53587400	Weak transcription	Rectal Smooth Muscle	rectum
4	chr3:53581400-53587200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr3:53584400-53587200	Weak transcription	Pancreas	Pancrea
6	chr3:53584600-53587200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr3:53584800-53592600	Weak transcription	Colon Smooth Muscle	Colon
8	chr3:53586200-53587600	Weak transcription	GM12878-XiMat	blood
9	chr3:53586200-53600800	Weak transcription	Fetal Intestine Large	intestine
10	chr3:53586400-53587400	Weak transcription	Gastric	stomach
11	chr3:53586400-53587800	Enhancers	Fetal Intestine Small	intestine
12	chr3:53586600-53587200	Enhancers	Stomach Mucosa	stomach
13	chr3:53586600-53587600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
14	chr3:53586600-53589800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
15	chr3:53587000-53587200	Enhancers	Duodenum Smooth Muscle	Duodenum
16	chr3:53587000-53587400	Enhancers	Duodenum Mucosa	Duodenum
17	chr3:53587000-53587600	Enhancers	Stomach Smooth Muscle	stomach
18	chr3:53587000-53587800	Enhancers	Fetal Lung	lung

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