Variant report

Variant	rs6532549
Chromosome Location	chr4:96238873-96238874
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	chr4:96238634..96240749-chr4:96243544..96245524,2	K562	blood:
2	chr4:96237471..96240020-chr4:99477884..99480366,2	K562	blood:

Extended variants
information (count: 99 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:97)

rs_ID	r²[population]
rs10003526	0.84[ASN][1000 genomes]
rs10006102	0.89[CHB][hapmap];0.84[ASN][1000 genomes]
rs10009125	0.85[ASN][1000 genomes]
rs10010074	0.86[CHB][hapmap];0.84[ASN][1000 genomes]
rs10013989	0.89[CHB][hapmap];0.84[ASN][1000 genomes]
rs10020354	0.84[ASN][1000 genomes]
rs10026678	0.86[CHB][hapmap];0.82[JPT][hapmap];0.88[ASN][1000 genomes]
rs10027175	0.94[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10029797	0.94[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10032662	0.84[ASN][1000 genomes]
rs10049501	1.00[CHB][hapmap];0.83[ASN][1000 genomes]
rs10049946	0.83[ASN][1000 genomes]
rs10856912	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.96[GIH][hapmap];0.86[JPT][hapmap];1.00[MEX][hapmap];0.80[MKK][hapmap];1.00[TSI][hapmap];0.84[YRI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11097466	0.88[ASN][1000 genomes]
rs1119769	0.81[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];0.80[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs11727932	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11932445	0.88[ASN][1000 genomes]
rs13116085	0.89[CHB][hapmap];0.86[ASN][1000 genomes]
rs13120566	0.84[ASN][1000 genomes]
rs13135470	0.84[ASN][1000 genomes]
rs13151463	0.85[ASN][1000 genomes]
rs13434678	0.88[CHB][hapmap];0.85[ASN][1000 genomes]
rs1351769	0.89[CHB][hapmap];0.86[ASN][1000 genomes]
rs1384869	1.00[CEU][hapmap];0.89[CHB][hapmap];0.86[JPT][hapmap];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1483735	1.00[CHB][hapmap];0.82[CHD][hapmap];0.92[ASN][1000 genomes]
rs1483737	0.83[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.86[JPT][hapmap];0.99[ASN][1000 genomes]
rs1483738	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1483751	1.00[CEU][hapmap];0.89[CHB][hapmap];0.86[JPT][hapmap];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1483753	0.89[CHB][hapmap]
rs1483755	0.93[CEU][hapmap];0.89[CHB][hapmap];0.86[JPT][hapmap];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1531866	1.00[CHB][hapmap];0.83[ASN][1000 genomes]
rs1580419	1.00[CEU][hapmap];0.89[CHB][hapmap];0.86[JPT][hapmap];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1586164	0.89[CHB][hapmap];0.86[JPT][hapmap];0.88[ASN][1000 genomes]
rs1586166	0.89[CHB][hapmap];0.86[CHD][hapmap];0.86[JPT][hapmap];0.88[ASN][1000 genomes]
rs1586167	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1843016	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1843017	1.00[CEU][hapmap];0.89[CHB][hapmap];0.86[CHD][hapmap];0.96[GIH][hapmap];0.86[JPT][hapmap];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1905457	0.84[CHB][hapmap];0.84[ASN][1000 genomes]
rs1905458	0.84[ASN][1000 genomes]
rs1905459	0.84[ASN][1000 genomes]
rs1905460	0.84[ASN][1000 genomes]
rs1973244	0.86[CEU][hapmap];0.89[CHB][hapmap];0.86[JPT][hapmap];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1973245	0.89[CHB][hapmap];0.84[ASN][1000 genomes]
rs2035468	1.00[CEU][hapmap];0.89[CHB][hapmap];0.86[JPT][hapmap];0.82[EUR][1000 genomes]
rs2128915	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2128916	0.81[CEU][hapmap];0.86[JPT][hapmap];0.83[ASN][1000 genomes]
rs2170780	0.89[CHB][hapmap];0.86[CHD][hapmap];0.86[JPT][hapmap];0.90[ASN][1000 genomes]
rs2621440	0.89[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs2621447	0.84[ASN][1000 genomes]
rs2621459	0.86[JPT][hapmap]
rs2621460	1.00[CEU][hapmap];0.86[CHB][hapmap];0.85[JPT][hapmap];0.82[EUR][1000 genomes]
rs2621464	1.00[CEU][hapmap];0.89[CHB][hapmap];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2621467	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2626033	0.82[CHB][hapmap];0.83[ASN][1000 genomes]
rs2626034	1.00[CEU][hapmap];0.89[CHB][hapmap];0.86[CHD][hapmap];0.96[GIH][hapmap];0.86[JPT][hapmap];0.85[MEX][hapmap];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2626037	0.80[EUR][1000 genomes]
rs2626038	0.82[EUR][1000 genomes]
rs2626043	1.00[CEU][hapmap];0.86[CHD][hapmap];0.96[GIH][hapmap];0.86[JPT][hapmap];0.85[MEX][hapmap];0.82[EUR][1000 genomes]
rs2626053	1.00[CEU][hapmap];0.89[CHB][hapmap];0.86[CHD][hapmap];0.96[GIH][hapmap];0.86[JPT][hapmap];0.85[MEX][hapmap];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2626070	0.82[ASN][1000 genomes]
rs2626072	0.82[EUR][1000 genomes]
rs2626074	0.89[CHB][hapmap];0.81[CHD][hapmap]
rs2626076	1.00[CEU][hapmap];0.89[CHB][hapmap];0.82[EUR][1000 genomes]
rs2865444	0.84[ASN][1000 genomes]
rs2865445	0.88[CHB][hapmap];0.86[JPT][hapmap];0.84[ASN][1000 genomes]
rs2865446	0.89[CHB][hapmap];0.84[ASN][1000 genomes]
rs2865448	0.89[GIH][hapmap]
rs34328980	1.00[CEU][hapmap];0.89[CHB][hapmap];0.81[CHD][hapmap];0.96[GIH][hapmap];0.86[JPT][hapmap];0.85[MEX][hapmap];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3919920	0.84[ASN][1000 genomes]
rs4130507	0.89[CHB][hapmap];0.86[JPT][hapmap];0.88[ASN][1000 genomes]
rs4235419	0.89[CHB][hapmap];0.85[ASN][1000 genomes]
rs4699416	0.85[ASN][1000 genomes]
rs4699420	0.84[ASN][1000 genomes]
rs4699421	0.89[CHB][hapmap];0.86[CHD][hapmap];0.84[ASN][1000 genomes]
rs4699422	0.84[ASN][1000 genomes]
rs4699423	0.89[CHB][hapmap];0.85[ASN][1000 genomes]
rs4699424	0.89[CHB][hapmap];0.86[CHD][hapmap];0.84[ASN][1000 genomes]
rs4699847	1.00[CHB][hapmap];0.81[CHD][hapmap];0.84[ASN][1000 genomes]
rs4699850	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs4699854	0.89[CHB][hapmap];0.86[CHD][hapmap];0.86[JPT][hapmap];0.92[ASN][1000 genomes]
rs62307080	0.84[ASN][1000 genomes]
rs6532546	0.87[ASN][1000 genomes]
rs6532547	0.87[ASN][1000 genomes]
rs6532548	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6817365	0.89[ASN][1000 genomes]
rs6833714	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6842543	0.85[ASN][1000 genomes]
rs6843030	0.85[ASN][1000 genomes]
rs6848679	0.93[CEU][hapmap];1.00[CHB][hapmap];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6848737	1.00[CHB][hapmap];0.87[ASN][1000 genomes]
rs7667927	0.84[ASN][1000 genomes]
rs7668316	0.84[ASN][1000 genomes]
rs956159	0.89[CHB][hapmap];0.84[ASN][1000 genomes]
rs988360	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs997464	0.89[CHB][hapmap];0.86[CHD][hapmap];0.86[JPT][hapmap];0.83[ASN][1000 genomes]
rs9998511	0.84[ASN][1000 genomes]
rs9999811	0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	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
2	nsv1001955	chr4:96216118-96445841	Enhancers Weak transcription Bivalent Enhancer Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:96223000-96252400	Weak transcription	Fetal Lung	lung
2	chr4:96235600-96241000	Enhancers	Brain Substantia Nigra	brain
3	chr4:96236400-96240800	Enhancers	Brain Cingulate Gyrus	brain
4	chr4:96236800-96240600	Enhancers	Brain Angular Gyrus	brain
5	chr4:96237000-96241800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
6	chr4:96237400-96239200	Enhancers	Fetal Brain Male	brain
7	chr4:96237400-96240200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr4:96237400-96240200	Enhancers	Brain Inferior Temporal Lobe	brain
9	chr4:96237400-96240800	Enhancers	Cortex derived primary cultured neurospheres	brain
10	chr4:96237600-96240600	Enhancers	Brain Anterior Caudate	brain
11	chr4:96237600-96240800	Enhancers	Brain Hippocampus Middle	brain
12	chr4:96238200-96239200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
13	chr4:96238200-96239600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
14	chr4:96238200-96240200	Enhancers	Fetal Stomach	stomach
15	chr4:96238200-96240400	Enhancers	Fetal Brain Female	brain
16	chr4:96238200-96241000	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
17	chr4:96238400-96239000	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
18	chr4:96238400-96239000	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
19	chr4:96238400-96240600	Enhancers	Fetal Heart	heart
20	chr4:96238400-96241200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr4:96238600-96239000	Enhancers	Right Atrium	heart
22	chr4:96238800-96239600	Enhancers	Aorta	Aorta
23	chr4:96238800-96240000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
24	chr4:96238800-96240200	Enhancers	Brain Germinal Matrix	brain
25	chr4:96238800-96240400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived

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