Variant report

Variant	rs6820744
Chromosome Location	chr4:95811080-95811081
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:95678457..95680699-chr4:95808696..95811437,2	MCF-7	breast:
2	chr4:95810479..95814160-chr4:95814675..95817418,3	K562	blood:

Variant related genes	Relation type
ENSG00000249599	Chromatin interaction
ENSG00000138696	Chromatin interaction

Extended variants
information (count: 78 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:74)

rs_ID	r²[population]
rs1011959	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1011961	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.83[TSI][hapmap];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10213566	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs11932133	0.93[CHD][hapmap];0.85[EUR][1000 genomes]
rs11932660	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11942643	0.81[EUR][1000 genomes]
rs13105913	0.86[ASW][hapmap];1.00[CEU][hapmap];0.92[TSI][hapmap];0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs13105915	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13109358	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs13123144	0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13133713	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs13140476	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1444932	0.94[ASN][1000 genomes]
rs1444933	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1541372	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17022471	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17022477	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17022488	0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17022547	1.00[JPT][hapmap];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17022573	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17428994	0.86[CEU][hapmap];0.93[CHD][hapmap];1.00[MEX][hapmap];0.92[TSI][hapmap];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17429196	0.87[ASW][hapmap];1.00[CEU][hapmap];0.81[LWK][hapmap];0.82[MEX][hapmap];0.92[TSI][hapmap];0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs17429252	1.00[CEU][hapmap];0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs17429308	1.00[CEU][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs17501058	1.00[CEU][hapmap];0.94[LWK][hapmap];0.82[MEX][hapmap];0.92[TSI][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1859156	0.87[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2023833	0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2044327	1.00[CEU][hapmap];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2240035	0.98[ASN][1000 genomes]
rs2240036	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs28534678	0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs28711183	0.94[ASN][1000 genomes]
rs34158313	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34628453	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs34867390	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs35306626	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs35400524	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs35992199	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3755872	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3775005	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3775008	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3775009	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.84[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3775010	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs3775012	0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3775013	0.94[ASN][1000 genomes]
rs3775014	0.94[ASN][1000 genomes]
rs3775016	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.88[TSI][hapmap];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3775023	1.00[JPT][hapmap]
rs3775027	0.88[ASN][1000 genomes]
rs3775028	1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs3821961	1.00[ASN][1000 genomes]
rs3821962	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs41367045	0.87[ASW][hapmap]
rs4455423	0.82[MEX][hapmap]
rs61352301	0.94[ASN][1000 genomes]
rs6532516	0.98[ASN][1000 genomes]
rs67037000	0.85[EUR][1000 genomes]
rs6815228	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6816886	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6849640	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs71601244	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs72669099	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73836195	0.96[ASN][1000 genomes]
rs739729	1.00[CEU][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs739730	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7661079	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs7669822	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.88[TSI][hapmap];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7673527	0.81[ASN][1000 genomes]
rs7675431	0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7685361	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7690226	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7698986	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9307149	0.87[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs972409	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[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	nsv932216	chr4:95501261-96109807	Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Genic enhancers Strong transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
2	nsv1003860	chr4:95507683-96120619	Weak transcription Enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
3	nsv869528	chr4:95537649-96368018	Weak transcription Enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
4	nsv1005816	chr4:95573444-95902704	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:95804000-95813200	Weak transcription	A549	lung
2	chr4:95809800-95811600	Enhancers	Breast Myoepithelial Primary Cells	Breast
3	chr4:95810200-95811200	Enhancers	HUES64 Cell Line	embryonic stem cell
4	chr4:95810400-95811600	Enhancers	Cortex derived primary cultured neurospheres	brain
5	chr4:95810400-95813600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
6	chr4:95810600-95811200	Enhancers	iPS-18 Cell Line	embryonic stem cell
7	chr4:95810600-95811200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr4:95810600-95811200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
9	chr4:95810600-95811200	Enhancers	Fetal Kidney	kidney
10	chr4:95810600-95811200	Enhancers	HSMM	muscle
11	chr4:95810600-95811400	Enhancers	ES-I3 Cell Line	embryonic stem cell
12	chr4:95810600-95811400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
13	chr4:95810600-95811400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr4:95810600-95811400	Enhancers	iPS-20b Cell Line	embryonic stem cell
15	chr4:95810600-95811600	Enhancers	HUES48 Cell Line	embryonic stem cell
16	chr4:95810600-95811600	Enhancers	HMEC	breast
17	chr4:95810600-95811600	Enhancers	NH-A	brain
18	chr4:95810800-95811200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
19	chr4:95810800-95811200	Enhancers	iPS-15b Cell Line	embryonic stem cell
20	chr4:95810800-95811200	Enhancers	HSMMtube	muscle
21	chr4:95810800-95811400	Enhancers	H1 Cell Line	embryonic stem cell
22	chr4:95810800-95811400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
23	chr4:95810800-95811400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
24	chr4:95810800-95811400	Enhancers	Fetal Muscle Leg	muscle
25	chr4:95810800-95811400	Enhancers	Psoas Muscle	Psoas
26	chr4:95810800-95811400	Enhancers	NHEK	skin
27	chr4:95810800-95811600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr4:95811000-95811200	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
29	chr4:95811000-95811200	Enhancers	Aorta	Aorta
30	chr4:95811000-95811600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
31	chr4:95811000-95833600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

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