Variant report

Variant	rs9369488
Chromosome Location	chr6:44404075-44404076
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:44403977..44405888-chr6:44416360..44418391,2	K562	blood:

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10807300	0.88[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs1293205	0.86[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs1293208	0.86[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs1296018	0.87[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs13208709	0.83[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs1952979	0.84[AMR][1000 genomes]
rs2273667	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2297334	0.93[AFR][1000 genomes]
rs2894572	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs34264814	0.81[AMR][1000 genomes]
rs475426	0.88[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs525043	0.88[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs526851	0.84[ASN][1000 genomes]
rs545455	0.88[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs548342	0.88[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs557470	0.86[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs559035	0.88[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs564988	0.81[AMR][1000 genomes]
rs67182313	0.88[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs6923521	0.88[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs6934058	0.89[AFR][1000 genomes]
rs864127	0.90[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs9381324	0.86[AFR][1000 genomes]
rs9395016	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9395017	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9462989	0.86[AMR][1000 genomes]
rs9472275	0.96[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1019145	chr6:44313576-44421440	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
2	nsv885858	chr6:44385441-44421240	Weak transcription Strong transcription Genic enhancers Enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
3	nsv885859	chr6:44385441-44422466	Strong transcription Weak transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
4	nsv517370	chr6:44385441-44422689	Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Enhancers Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
5	esv1850024	chr6:44388505-44422689	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:44376800-44424400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr6:44386600-44409200	Strong transcription	Monocytes-CD14+_RO01746	blood
3	chr6:44386800-44404200	Strong transcription	Fetal Thymus	thymus
4	chr6:44386800-44405000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
5	chr6:44386800-44406400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
6	chr6:44386800-44408800	Strong transcription	Primary B cells from peripheral blood	blood
7	chr6:44387000-44405000	Strong transcription	Primary T cells fromperipheralblood	blood
8	chr6:44387000-44405400	Strong transcription	Primary hematopoietic stem cells	blood
9	chr6:44387000-44408000	Strong transcription	Primary monocytes fromperipheralblood	blood
10	chr6:44387600-44408600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr6:44388400-44424400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
12	chr6:44388800-44409800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr6:44390000-44404600	Weak transcription	Stomach Mucosa	stomach
14	chr6:44390200-44409600	Weak transcription	Spleen	Spleen
15	chr6:44390200-44420200	Weak transcription	Brain Cingulate Gyrus	brain
16	chr6:44391800-44409800	Weak transcription	Aorta	Aorta
17	chr6:44391800-44412600	Weak transcription	Brain Hippocampus Middle	brain
18	chr6:44392800-44407000	Weak transcription	Ovary	ovary
19	chr6:44392800-44411800	Weak transcription	Esophagus	oesophagus
20	chr6:44393600-44411600	Weak transcription	Right Ventricle	heart
21	chr6:44394600-44407800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
22	chr6:44394800-44410000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
23	chr6:44395200-44407000	Weak transcription	NHEK	skin
24	chr6:44395200-44407200	Weak transcription	HMEC	breast
25	chr6:44395400-44408800	Weak transcription	HUVEC	blood vessel
26	chr6:44396600-44407000	Weak transcription	Osteobl	bone
27	chr6:44396600-44432800	Weak transcription	Fetal Kidney	kidney
28	chr6:44397200-44409800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
29	chr6:44397400-44404400	Weak transcription	Fetal Brain Female	brain
30	chr6:44397400-44409800	Weak transcription	Fetal Brain Male	brain
31	chr6:44397800-44408600	Weak transcription	Brain Germinal Matrix	brain
32	chr6:44398200-44413400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
33	chr6:44398200-44413400	Weak transcription	Placenta Amnion	Placenta Amnion
34	chr6:44398400-44407000	Weak transcription	NHLF	lung
35	chr6:44398400-44407200	Weak transcription	Thymus	Thymus
36	chr6:44398400-44409800	Weak transcription	H1 Cell Line	embryonic stem cell
37	chr6:44398400-44410000	Weak transcription	Brain Anterior Caudate	brain
38	chr6:44398400-44411800	Weak transcription	Lung	lung
39	chr6:44398400-44413600	Weak transcription	Brain Angular Gyrus	brain
40	chr6:44398400-44415400	Weak transcription	Small Intestine	intestine
41	chr6:44398600-44407000	Weak transcription	Adipose Nuclei	Adipose
42	chr6:44398600-44407200	Weak transcription	Fetal Muscle Leg	muscle
43	chr6:44398600-44407200	Weak transcription	Left Ventricle	heart
44	chr6:44398600-44407400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
45	chr6:44398600-44410000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
46	chr6:44398600-44411600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
47	chr6:44398600-44419600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
48	chr6:44398800-44408400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
49	chr6:44398800-44408800	Weak transcription	Brain Substantia Nigra	brain
50	chr6:44398800-44409200	Weak transcription	Fetal Muscle Trunk	muscle

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