Variant report

Variant	rs3796872
Chromosome Location	chr4:15807756-15807757
allele	G/T
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

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

No.	Distal block	Cell Line	Cell type
1	chr4:15480670..15481284-chr4:15807016..15807786,2	MCF-7	breast:
2	chr4:15806938..15808731-chr4:15956942..15959100,23	MCF-7	breast:
3	chr4:15806718..15807918-chr4:15957577..15958542,9	K562	blood:
4	chr4:15807385..15808050-chr4:15955550..15956370,2	MCF-7	breast:
5	chr4:15807425..15808029-chr4:15884349..15884905,2	MCF-7	breast:
6	chr4:15806892..15808411-chr4:15957025..15958377,7	MCF-7	breast:
7	chr4:15480282..15481134-chr4:15806986..15807971,3	MCF-7	breast:
8	chr4:15807264..15808022-chr4:16200416..16201272,3	MCF-7	breast:
9	chr4:15807414..15807927-chr4:16266396..16267022,2	K562	blood:
10	chr4:15807303..15808035-chr4:16206943..16207548,2	MCF-7	breast:
11	chr4:15807387..15808181-chr4:15965507..15966376,2	MCF-7	breast:
12	chr4:15807510..15808449-chr4:16002625..16003288,4	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000048342	Chromatin interaction

Extended variants
information (count: 67 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs10004415	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10016073	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10016948	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10939635	0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28864507	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3775952	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3775953	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3775955	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3796870	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3796871	0.81[CHB][hapmap]
rs3796873	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3796874	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3796875	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3796876	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3822255	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3822256	0.86[CHB][hapmap]
rs3822257	0.81[CHB][hapmap]
rs4285083	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4481229	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4508877	0.81[CHB][hapmap]
rs4580644	0.88[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs55934802	0.86[ASN][1000 genomes]
rs55944292	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6449184	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6449185	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6449186	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6449187	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6449188	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6449189	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6449191	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6449192	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6449193	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6449194	0.87[ASN][1000 genomes]
rs6449195	0.93[CHB][hapmap];0.86[ASN][1000 genomes]
rs6449197	0.93[CHB][hapmap];0.86[ASN][1000 genomes]
rs6449198	0.85[ASN][1000 genomes]
rs6449199	0.86[ASN][1000 genomes]
rs6449200	0.86[ASN][1000 genomes]
rs6819300	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6836374	0.81[CHB][hapmap]
rs6843266	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6844578	0.84[ASN][1000 genomes]
rs6852105	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6852728	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6853339	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6853351	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6858514	0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7659546	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7661891	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7663941	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7665303	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7665330	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7666953	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7667590	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7668511	0.80[EUR][1000 genomes]
rs7679308	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7688839	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7690685	0.81[CHB][hapmap]
rs7690854	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9884223	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9884920	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9990613	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1012988	chr4:15597510-16091527	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
2	nsv10460	chr4:15757611-15818206	ZNF genes & repeats Enhancers Active TSS Bivalent/Poised TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv1013204	chr4:15762970-15836237	Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Weak transcription Bivalent/Poised TSS Strong transcription Bivalent Enhancer Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
4	nsv1010597	chr4:15776181-15836237	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
5	nsv916742	chr4:15797994-16064232	Strong transcription Enhancers Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:15794000-15812200	Genic enhancers	Dnd41	blood
2	chr4:15796000-15808200	Weak transcription	Spleen	Spleen
3	chr4:15805800-15809600	Weak transcription	Primary hematopoietic stem cells	blood
4	chr4:15806000-15808400	Enhancers	Skeletal Muscle Male	skeletal muscle
5	chr4:15806400-15808200	Weak transcription	Thymus	Thymus
6	chr4:15807000-15808000	Enhancers	Primary T cells from cord blood	blood
7	chr4:15807000-15808400	Enhancers	Primary B cells from cord blood	blood
8	chr4:15807200-15807800	Enhancers	Primary T helper naive cells from peripheral blood	blood
9	chr4:15807200-15808000	Enhancers	Primary T helper cells PMA-I stimulated	--
10	chr4:15807200-15808200	Enhancers	GM12878-XiMat	blood
11	chr4:15807200-15808400	Enhancers	Primary B cells from peripheral blood	blood
12	chr4:15807400-15807800	Enhancers	Primary neutrophils fromperipheralblood	blood
13	chr4:15807400-15807800	Enhancers	Duodenum Mucosa	Duodenum
14	chr4:15807400-15807800	Enhancers	Rectal Mucosa Donor 31	rectum
15	chr4:15807400-15807800	Enhancers	Stomach Smooth Muscle	stomach
16	chr4:15807400-15808000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
17	chr4:15807400-15808000	Enhancers	Adipose Nuclei	Adipose
18	chr4:15807400-15808000	Enhancers	Monocytes-CD14+_RO01746	blood
19	chr4:15807400-15808200	Enhancers	Primary monocytes fromperipheralblood	blood
20	chr4:15807400-15808200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
21	chr4:15807400-15808200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
22	chr4:15807400-15808200	Enhancers	Fetal Thymus	thymus
23	chr4:15807400-15808400	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
24	chr4:15807400-15808400	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
25	chr4:15807400-15808600	Enhancers	Skeletal Muscle Female	skeletal muscle
26	chr4:15807600-15808000	Enhancers	ES-I3 Cell Line	embryonic stem cell
27	chr4:15807600-15808000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr4:15807600-15808000	Enhancers	Psoas Muscle	Psoas
29	chr4:15807600-15808200	Enhancers	iPS-15b Cell Line	embryonic stem cell
30	chr4:15807600-15808800	Enhancers	Primary T helper cells fromperipheralblood	blood

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