Variant report

Variant	rs6557163
Chromosome Location	chr6:150220476-150220477
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:150204116..150206853-chr6:150220194..150222804,3	K562	blood:
2	chr6:150183832..150186232-chr6:150215270..150224001,9	MCF-7	breast:
3	chr6:150208190..150211087-chr6:150219720..150221224,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000223701	Chromatin interaction
ENSG00000268592	Chromatin interaction
ENSG00000120256	Chromatin interaction

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs10457853	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17079029	1.00[CEU][hapmap];0.91[CHB][hapmap];0.82[JPT][hapmap];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2342773	0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4142628	1.00[CEU][hapmap];0.96[CHB][hapmap];0.96[JPT][hapmap];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6557137	1.00[CEU][hapmap];0.91[JPT][hapmap];0.92[EUR][1000 genomes]
rs6904335	0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6905778	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6910351	1.00[CEU][hapmap];0.95[JPT][hapmap];0.93[EUR][1000 genomes]
rs6915465	1.00[CEU][hapmap];0.91[CHB][hapmap];0.82[JPT][hapmap];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6927913	1.00[CEU][hapmap];0.86[CHB][hapmap];0.82[JPT][hapmap];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6936944	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72997594	0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7745070	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7761734	0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9322226	1.00[CEU][hapmap];0.91[JPT][hapmap];0.92[EUR][1000 genomes]
rs9322227	1.00[CEU][hapmap];0.91[JPT][hapmap];0.92[EUR][1000 genomes]
rs9322230	0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9322231	0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9371216	0.92[EUR][1000 genomes]
rs9371523	0.95[EUR][1000 genomes]
rs9371539	1.00[CEU][hapmap];0.92[JPT][hapmap];0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9371555	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9383569	0.92[EUR][1000 genomes]
rs9383573	1.00[CEU][hapmap];0.95[JPT][hapmap];0.93[EUR][1000 genomes]
rs9383583	1.00[CEU][hapmap];0.91[JPT][hapmap];0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9383916	0.94[EUR][1000 genomes]
rs9383942	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9383943	0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9383944	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9383945	0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9397049	0.92[EUR][1000 genomes]
rs9397053	1.00[CEU][hapmap];0.87[JPT][hapmap];0.92[EUR][1000 genomes]
rs9397056	1.00[CEU][hapmap];0.92[JPT][hapmap];0.94[EUR][1000 genomes]
rs9397057	0.94[EUR][1000 genomes]
rs9397060	1.00[CEU][hapmap];0.83[JPT][hapmap];0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9397071	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9397394	0.91[EUR][1000 genomes]
rs9397399	1.00[CEU][hapmap];0.91[JPT][hapmap];0.93[EUR][1000 genomes]
rs9397419	0.94[EUR][1000 genomes]
rs9397447	0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9397449	1.00[CEU][hapmap];0.95[CHB][hapmap];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9397451	0.88[CEU][hapmap];0.87[CHB][hapmap];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[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	nsv886764	chr6:150114745-150393683	Weak transcription Bivalent Enhancer Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	nsv517022	chr6:150145001-150426272	Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Strong transcription Enhancers Bivalent/Poised TSS Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
3	nsv886765	chr6:150198491-150288722	Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Weak transcription Active TSS ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
4	esv1817805	chr6:150209592-150268708	Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Weak transcription ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:150209600-150222200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr6:150216000-150222600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr6:150216600-150221800	Weak transcription	Pancreas	Pancrea
4	chr6:150216600-150225000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr6:150217800-150221600	Weak transcription	Gastric	stomach
6	chr6:150218600-150221600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr6:150218600-150222600	Enhancers	HMEC	breast
8	chr6:150218800-150221400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
9	chr6:150218800-150227600	Weak transcription	Fetal Intestine Small	intestine
10	chr6:150219000-150221200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
11	chr6:150219000-150221400	Enhancers	NHEK	skin
12	chr6:150219000-150225800	Weak transcription	Right Atrium	heart
13	chr6:150219200-150223000	Enhancers	Esophagus	oesophagus
14	chr6:150219200-150225400	Weak transcription	Psoas Muscle	Psoas
15	chr6:150219200-150226200	Weak transcription	Spleen	Spleen
16	chr6:150219400-150220800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
17	chr6:150219400-150226000	Weak transcription	Lung	lung
18	chr6:150220000-150221000	Weak transcription	Hela-S3	cervix
19	chr6:150220200-150221200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
20	chr6:150220200-150221400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
21	chr6:150220200-150225400	Weak transcription	Skeletal Muscle Female	skeletal muscle

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