Variant report

Variant	rs9399587
Chromosome Location	chr6:147180051-147180052
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:147178857..147181755-chr6:147524235..147526085,2	MCF-7	breast:
2	chr6:147178602..147180311-chr6:147503523..147505454,2	K562	blood:
3	chr6:147177851..147181465-chr6:147522179..147525344,4	K562	blood:

Variant related genes	Relation type
ENSG00000164506	Chromatin interaction
ENSG00000233452	Chromatin interaction

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs1119876	0.91[JPT][hapmap]
rs1324680	0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1324685	0.91[JPT][hapmap]
rs1408574	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1408575	0.82[JPT][hapmap]
rs1924691	0.86[CHD][hapmap];0.91[JPT][hapmap]
rs1924692	0.84[JPT][hapmap]
rs1924695	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2328769	0.91[JPT][hapmap]
rs2328770	0.87[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];0.93[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs259370	0.81[CEU][hapmap]
rs259371	0.88[CEU][hapmap];0.82[CHB][hapmap];0.88[GIH][hapmap];0.92[JPT][hapmap];0.85[TSI][hapmap]
rs259385	0.81[CEU][hapmap]
rs477801	0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4896892	0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6570778	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6915391	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6926089	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6929209	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6937015	0.84[ASN][1000 genomes]
rs7755795	0.91[JPT][hapmap]
rs9322079	0.85[CEU][hapmap]
rs9377032	1.00[CEU][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9390437	0.91[JPT][hapmap]
rs9399588	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9403826	0.90[JPT][hapmap]
rs9497645	0.86[YRI][hapmap]
rs9497647	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830838	chr6:147090745-147274669	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS ZNF genes & repeats Strong transcription Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:147179000-147180600	Weak transcription	NHEK	skin
2	chr6:147179000-147181800	Weak transcription	Pancreas	Pancrea
3	chr6:147179000-147186000	Weak transcription	Esophagus	oesophagus
4	chr6:147179200-147180600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr6:147179200-147181200	Weak transcription	Liver	Liver
6	chr6:147179400-147180200	Active TSS	K562	blood
7	chr6:147179400-147180400	Weak transcription	Primary neutrophils fromperipheralblood	blood
8	chr6:147179400-147180600	Weak transcription	HMEC	breast
9	chr6:147179400-147183800	Weak transcription	Monocytes-CD14+_RO01746	blood
10	chr6:147179600-147181000	Weak transcription	NHDF-Ad	bronchial
11	chr6:147179600-147181200	Weak transcription	NHLF	lung
12	chr6:147179600-147181400	Weak transcription	Brain Substantia Nigra	brain
13	chr6:147179600-147181600	Weak transcription	Brain Angular Gyrus	brain
14	chr6:147179600-147181600	Weak transcription	Brain Hippocampus Middle	brain
15	chr6:147179600-147181600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
16	chr6:147179600-147181800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
17	chr6:147179600-147181800	Weak transcription	Brain Anterior Caudate	brain
18	chr6:147179600-147181800	Weak transcription	Brain Cingulate Gyrus	brain
19	chr6:147179600-147181800	Weak transcription	Brain Inferior Temporal Lobe	brain
20	chr6:147179600-147184800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
21	chr6:147179600-147185000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
22	chr6:147179600-147192200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
23	chr6:147180000-147182000	Weak transcription	Pancreatic Islets	Pancreatic Islet

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