Variant report

Variant	rs3797821
Chromosome Location	chr5:108288345-108288346
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs10515399	0.86[AFR][1000 genomes];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11948270	0.91[ASN][1000 genomes]
rs11950165	0.98[ASN][1000 genomes]
rs11960268	0.91[ASN][1000 genomes]
rs11960336	0.91[ASN][1000 genomes]
rs28733366	0.81[ASN][1000 genomes]
rs3797818	0.94[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3797819	0.94[AFR][1000 genomes];0.86[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs3797820	0.94[AFR][1000 genomes];0.86[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs3797823	0.97[ASN][1000 genomes]
rs3797825	0.93[ASN][1000 genomes]
rs4404726	0.80[ASN][1000 genomes]
rs4957793	0.91[ASN][1000 genomes]
rs56121551	0.91[ASN][1000 genomes]
rs57814250	0.90[ASN][1000 genomes]
rs58647764	0.91[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs58729959	0.91[ASN][1000 genomes]
rs60834821	0.80[ASN][1000 genomes]
rs66623856	1.00[ASN][1000 genomes]
rs66851282	0.91[ASN][1000 genomes]
rs67053762	0.86[ASN][1000 genomes]
rs67586696	0.98[ASN][1000 genomes]
rs6872299	0.91[ASN][1000 genomes]
rs6882759	0.83[AFR][1000 genomes];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6884648	0.86[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs6893501	0.91[ASN][1000 genomes]
rs6893984	0.91[ASN][1000 genomes]
rs72793921	0.98[ASN][1000 genomes]
rs73209364	0.93[AFR][1000 genomes];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73209368	0.91[AFR][1000 genomes];0.80[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs73209370	0.88[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs73211525	0.80[AFR][1000 genomes]
rs73211527	0.90[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs73211528	0.90[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs73211549	0.86[AFR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs73211553	0.85[AFR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs73211559	0.86[AFR][1000 genomes];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs73211560	0.86[AFR][1000 genomes];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs73778332	0.93[AFR][1000 genomes];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73778336	0.90[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs73778344	0.89[AFR][1000 genomes];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs73778358	0.86[AFR][1000 genomes];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7719638	0.92[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs7723942	1.00[ASN][1000 genomes]
rs7731116	0.91[AFR][1000 genomes];0.80[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs7731221	0.94[ASN][1000 genomes]
rs7732335	1.00[ASN][1000 genomes]
rs7732510	1.00[ASN][1000 genomes]
rs7734092	0.92[AFR][1000 genomes];0.86[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs7734110	0.91[AFR][1000 genomes];0.86[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs7735749	0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv882689	chr5:107595383-108299744	Enhancers ZNF genes & repeats Active TSS Strong transcription Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
2	nsv1016343	chr5:108220116-108364687	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region miRNA target site	4 gene(s)	inside rSNPs	diseases
3	nsv882691	chr5:108229760-108366473	Weak transcription Strong transcription Enhancers Genic enhancers Active TSS ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region miRNA target site	3 gene(s)	inside rSNPs	diseases
4	nsv525993	chr5:108288345-108299744	Strong transcription Enhancers Weak transcription	miRNA target site	n/a	inside rSNPs	diseases

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:108203800-108323400	Weak transcription	Primary B cells from cord blood	blood
2	chr5:108217600-108323200	Weak transcription	Left Ventricle	heart
3	chr5:108230200-108302400	Weak transcription	HSMM	muscle
4	chr5:108244200-108295000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
5	chr5:108254000-108311200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr5:108268400-108301400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr5:108270600-108289200	Weak transcription	K562	blood
8	chr5:108277600-108322400	Weak transcription	Duodenum Smooth Muscle	Duodenum
9	chr5:108278000-108308200	Weak transcription	Fetal Kidney	kidney
10	chr5:108279000-108295000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr5:108279200-108302600	Weak transcription	Ovary	ovary
12	chr5:108279200-108325600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
13	chr5:108279800-108295200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
14	chr5:108281000-108302400	Weak transcription	Dnd41	blood
15	chr5:108281000-108302600	Weak transcription	HMEC	breast
16	chr5:108281000-108313400	Weak transcription	Adipose Nuclei	Adipose
17	chr5:108281200-108302600	Weak transcription	Brain Angular Gyrus	brain
18	chr5:108281600-108296800	Weak transcription	Fetal Heart	heart
19	chr5:108282200-108324600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
20	chr5:108282400-108327200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
21	chr5:108282800-108294800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
22	chr5:108283400-108289400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
23	chr5:108283400-108289400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
24	chr5:108283400-108319000	Weak transcription	Muscle Satellite Cultured Cells	--
25	chr5:108284000-108289400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
26	chr5:108286000-108289400	Weak transcription	HUES48 Cell Line	embryonic stem cell
27	chr5:108287800-108310000	Weak transcription	Rectal Mucosa Donor 31	rectum

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