Variant report

Variant	rs9367006
Chromosome Location	chr6:39391436-39391437
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10807207	1.00[CHB][hapmap];0.88[JPT][hapmap];0.92[ASN][1000 genomes]
rs10947809	1.00[CHB][hapmap];0.93[CHD][hapmap];0.90[JPT][hapmap];0.96[ASN][1000 genomes]
rs10947810	1.00[CHB][hapmap];0.97[CHD][hapmap];0.92[ASN][1000 genomes]
rs10947811	1.00[CHB][hapmap];0.93[ASN][1000 genomes]
rs1106961	0.85[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs12527811	0.87[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];0.90[JPT][hapmap];0.80[MEX][hapmap];0.97[ASN][1000 genomes]
rs1328383	0.95[CHB][hapmap];0.90[CHD][hapmap];0.84[ASN][1000 genomes]
rs1328388	0.94[CHB][hapmap];0.80[ASN][1000 genomes]
rs1328389	0.95[CHB][hapmap];0.93[CHD][hapmap];0.86[ASN][1000 genomes]
rs1328390	0.92[ASN][1000 genomes]
rs1887713	0.95[CHB][hapmap];0.85[ASN][1000 genomes]
rs1999045	0.95[CHB][hapmap];0.86[CHD][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs4142117	1.00[CHB][hapmap];0.97[CHD][hapmap];0.85[GIH][hapmap];0.93[ASN][1000 genomes]
rs4142118	1.00[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap];0.83[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4392720	0.94[CHB][hapmap];0.81[ASN][1000 genomes]
rs4714250	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4714251	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.81[TSI][hapmap];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4714253	1.00[CEU][hapmap]
rs6458114	0.81[CHB][hapmap];0.93[ASN][1000 genomes]
rs6458115	1.00[CHB][hapmap];0.97[CHD][hapmap];0.93[ASN][1000 genomes]
rs6900629	1.00[CHB][hapmap];0.97[CHD][hapmap];0.80[MEX][hapmap];0.93[ASN][1000 genomes]
rs6908396	1.00[CHB][hapmap]
rs72850620	0.90[ASN][1000 genomes]
rs7759557	0.87[CEU][hapmap];0.95[CHB][hapmap];0.93[CHD][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs9349120	0.87[CEU][hapmap]
rs9367004	0.85[CEU][hapmap];0.89[CHB][hapmap];0.87[CHD][hapmap];0.90[JPT][hapmap];0.90[ASN][1000 genomes]
rs9367005	0.85[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap];0.90[ASN][1000 genomes]
rs9369114	0.95[CHB][hapmap];0.90[CHD][hapmap];0.84[ASN][1000 genomes]
rs9380860	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9380864	0.85[CEU][hapmap]
rs9394591	1.00[CHB][hapmap];1.00[CHD][hapmap];0.85[GIH][hapmap];0.91[ASN][1000 genomes]
rs9462543	1.00[CHB][hapmap];1.00[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs9471089	0.90[ASN][1000 genomes]
rs9471090	0.95[CHB][hapmap];0.84[ASN][1000 genomes]
rs9471092	0.95[CHB][hapmap];0.85[ASN][1000 genomes]
rs9471097	1.00[CHB][hapmap];0.91[ASN][1000 genomes]
rs9471098	1.00[CHB][hapmap];0.90[CHD][hapmap];0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830645	chr6:39227601-39408310	Enhancers Weak transcription Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv533806	chr6:39270073-39397337	Enhancers Bivalent Enhancer Weak transcription Bivalent/Poised TSS Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv885822	chr6:39327708-39721216	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:39384200-39393200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
2	chr6:39385000-39396400	Weak transcription	HUES64 Cell Line	embryonic stem cell
3	chr6:39385200-39398800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr6:39385400-39393200	Weak transcription	NHEK	skin
5	chr6:39387600-39393600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
6	chr6:39387800-39392800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
7	chr6:39387800-39396400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
8	chr6:39389000-39393000	Weak transcription	Brain Angular Gyrus	brain
9	chr6:39389000-39393200	Weak transcription	Fetal Lung	lung
10	chr6:39389000-39398000	Weak transcription	Duodenum Smooth Muscle	Duodenum
11	chr6:39389200-39392200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr6:39389400-39393200	Weak transcription	Rectal Mucosa Donor 31	rectum
13	chr6:39389400-39393600	Weak transcription	Brain Cingulate Gyrus	brain
14	chr6:39389400-39398200	Weak transcription	Rectal Smooth Muscle	rectum
15	chr6:39389800-39392600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
16	chr6:39389800-39392800	Weak transcription	Brain Inferior Temporal Lobe	brain
17	chr6:39389800-39392800	Weak transcription	Brain Substantia Nigra	brain
18	chr6:39389800-39393800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr6:39390200-39392600	Weak transcription	HMEC	breast
20	chr6:39390200-39393600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
21	chr6:39390200-39394000	Weak transcription	Psoas Muscle	Psoas
22	chr6:39390400-39391800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
23	chr6:39390400-39391800	Weak transcription	Spleen	Spleen
24	chr6:39390400-39393200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
25	chr6:39390400-39393400	Weak transcription	Colon Smooth Muscle	Colon
26	chr6:39390400-39393600	Weak transcription	Brain Hippocampus Middle	brain
27	chr6:39390400-39399000	Weak transcription	Stomach Mucosa	stomach
28	chr6:39390600-39392800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
29	chr6:39390600-39393200	Weak transcription	Brain Anterior Caudate	brain
30	chr6:39390600-39393200	Weak transcription	Fetal Muscle Leg	muscle
31	chr6:39390600-39398800	Weak transcription	Lung	lung
32	chr6:39390800-39392600	Weak transcription	Sigmoid Colon	Sigmoid Colon
33	chr6:39390800-39392800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
34	chr6:39390800-39393400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
35	chr6:39390800-39395400	Weak transcription	Skeletal Muscle Female	skeletal muscle
36	chr6:39391000-39392400	Weak transcription	NHDF-Ad	bronchial
37	chr6:39391000-39393800	Weak transcription	Stomach Smooth Muscle	stomach
38	chr6:39391000-39396600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
39	chr6:39391200-39393200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin

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