Variant report

Variant	rs6458059
Chromosome Location	chr6:38557599-38557600
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	chr6:38542387..38543937-chr6:38555368..38558343,2	K562	blood:
2	chr6:38549497..38552330-chr6:38556506..38559502,2	K562	blood:

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10807196	0.96[CEU][hapmap];0.82[EUR][1000 genomes]
rs10807198	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10947752	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1321056	1.00[CEU][hapmap];0.86[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1699001	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1699002	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1699003	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1699004	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1699005	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1699007	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1699017	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1739621	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1739626	1.00[CEU][hapmap];0.86[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1739627	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap]
rs1739628	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1739629	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1739630	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1739632	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1739633	0.86[JPT][hapmap];0.82[ASN][1000 genomes]
rs1781708	1.00[CEU][hapmap];0.95[CHB][hapmap];0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1781711	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1781712	0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1852979	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2144328	0.89[CEU][hapmap];1.00[CHB][hapmap];0.96[JPT][hapmap];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2252550	0.96[CEU][hapmap];0.86[JPT][hapmap];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2748165	0.81[EUR][1000 genomes]
rs2748172	0.96[CEU][hapmap];0.88[EUR][1000 genomes]
rs2814883	0.92[CEU][hapmap];0.82[EUR][1000 genomes]
rs2814885	0.82[EUR][1000 genomes]
rs2814889	0.92[CEU][hapmap];0.82[EUR][1000 genomes]
rs2814894	1.00[CEU][hapmap];0.86[JPT][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4392718	0.96[CEU][hapmap];0.81[EUR][1000 genomes]
rs910516	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9394521	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[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	nsv1021991	chr6:37893949-38738720	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
2	nsv885817	chr6:38036420-39019503	Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Strong transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
3	nsv534620	chr6:38049585-38602064	Enhancers Strong transcription Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:95 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:38523000-38571600	Weak transcription	HSMMtube	muscle
2	chr6:38534400-38561600	Weak transcription	Primary neutrophils fromperipheralblood	blood
3	chr6:38535600-38557600	Weak transcription	HSMM	muscle
4	chr6:38535800-38559800	Weak transcription	Fetal Lung	lung
5	chr6:38535800-38560200	Weak transcription	NH-A	brain
6	chr6:38535800-38564000	Weak transcription	Duodenum Smooth Muscle	Duodenum
7	chr6:38535800-38578200	Weak transcription	Colon Smooth Muscle	Colon
8	chr6:38536200-38559200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
9	chr6:38536400-38560200	Weak transcription	Brain Angular Gyrus	brain
10	chr6:38536800-38566400	Weak transcription	Pancreas	Pancrea
11	chr6:38538000-38566800	Weak transcription	Esophagus	oesophagus
12	chr6:38538200-38558600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr6:38538600-38561800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
14	chr6:38538600-38562000	Weak transcription	Brain Germinal Matrix	brain
15	chr6:38539800-38562800	Weak transcription	Fetal Thymus	thymus
16	chr6:38540400-38557800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
17	chr6:38540400-38560000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
18	chr6:38540400-38561600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
19	chr6:38540400-38567800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
20	chr6:38540400-38569200	Weak transcription	Primary hematopoietic stem cells	blood
21	chr6:38540600-38559200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
22	chr6:38540600-38560000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
23	chr6:38541000-38565200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
24	chr6:38541400-38568600	Weak transcription	Spleen	Spleen
25	chr6:38541600-38567000	Weak transcription	Small Intestine	intestine
26	chr6:38542000-38563400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
27	chr6:38542200-38558800	Weak transcription	Stomach Smooth Muscle	stomach
28	chr6:38542800-38560200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
29	chr6:38543400-38560200	Weak transcription	Rectal Smooth Muscle	rectum
30	chr6:38544400-38560000	Weak transcription	Skeletal Muscle Male	skeletal muscle
31	chr6:38544600-38558800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
32	chr6:38545000-38561400	Weak transcription	Psoas Muscle	Psoas
33	chr6:38545400-38566000	Weak transcription	Colonic Mucosa	Colon
34	chr6:38546200-38563800	Weak transcription	Gastric	stomach
35	chr6:38546600-38559800	Weak transcription	Fetal Muscle Trunk	muscle
36	chr6:38547400-38559200	Weak transcription	Rectal Mucosa Donor 29	rectum
37	chr6:38547400-38560000	Weak transcription	Fetal Muscle Leg	muscle
38	chr6:38547400-38565400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
39	chr6:38547400-38566600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
40	chr6:38547600-38559200	Weak transcription	Placenta	Placenta
41	chr6:38547600-38559800	Weak transcription	Brain Anterior Caudate	brain
42	chr6:38548000-38558800	Weak transcription	Liver	Liver
43	chr6:38548000-38558800	Weak transcription	Monocytes-CD14+_RO01746	blood
44	chr6:38548200-38558800	Weak transcription	Duodenum Mucosa	Duodenum
45	chr6:38548200-38559600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
46	chr6:38548200-38559800	Weak transcription	Left Ventricle	heart
47	chr6:38548200-38559800	Weak transcription	Rectal Mucosa Donor 31	rectum
48	chr6:38548200-38561600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
49	chr6:38548200-38563800	Weak transcription	Brain Substantia Nigra	brain
50	chr6:38548200-38570800	Weak transcription	Fetal Kidney	kidney

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