Variant report

Variant	rs60416461
Chromosome Location	chr6:15422625-15422626
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:15421478..15424119-chr6:15428105..15430007,2	MCF-7	breast:
2	chr6:15418815..15421161-chr6:15421182..15423587,2	MCF-7	breast:
3	chr6:15422447..15425279-chr6:15425487..15427798,3	K562	blood:
4	chr6:15247260..15249688-chr6:15422200..15423721,2	K562	blood:
5	chr6:15417534..15419132-chr6:15421621..15423962,2	K562	blood:

Variant related genes	Relation type
ENSG00000008083	Chromatin interaction
ENSG00000235488	Chromatin interaction

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs11962577	1.00[EUR][1000 genomes]
rs11969192	1.00[EUR][1000 genomes]
rs16876354	0.81[AFR][1000 genomes]
rs2299051	0.80[AFR][1000 genomes]
rs57783281	1.00[EUR][1000 genomes]
rs58378663	1.00[EUR][1000 genomes]
rs6904997	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6906027	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6914974	0.87[AFR][1000 genomes]
rs6922136	0.80[AFR][1000 genomes];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6941859	0.86[AFR][1000 genomes]
rs73365251	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1027010	chr6:15201803-15425629	Flanking Active TSS Enhancers Weak transcription Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
2	nsv538140	chr6:15217899-15547127	Enhancers Weak transcription Strong transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	nsv1030558	chr6:15234675-15449137	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
4	nsv538141	chr6:15234675-15509163	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
5	nsv949448	chr6:15279490-15449441	Weak transcription Flanking Active TSS Enhancers Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
6	nsv1025512	chr6:15291551-15452395	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
7	nsv538143	chr6:15291551-15452395	Weak transcription Enhancers Genic enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:107 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:15401200-15426200	Weak transcription	Pancreas	Pancrea
2	chr6:15404800-15427600	Weak transcription	Stomach Smooth Muscle	stomach
3	chr6:15404800-15429000	Weak transcription	Muscle Satellite Cultured Cells	--
4	chr6:15409200-15426200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
5	chr6:15414200-15427200	Weak transcription	Rectal Smooth Muscle	rectum
6	chr6:15414200-15427400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
7	chr6:15414200-15429200	Weak transcription	HSMM	muscle
8	chr6:15414600-15427800	Weak transcription	Fetal Brain Male	brain
9	chr6:15415600-15423400	Weak transcription	Right Atrium	heart
10	chr6:15417000-15452200	Enhancers	iPS-15b Cell Line	embryonic stem cell
11	chr6:15417800-15426800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
12	chr6:15418000-15423200	Weak transcription	Fetal Stomach	stomach
13	chr6:15420200-15423200	Weak transcription	HMEC	breast
14	chr6:15420400-15422800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr6:15420400-15424000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
16	chr6:15420400-15425600	Weak transcription	NHEK	skin
17	chr6:15420400-15427400	Weak transcription	K562	blood
18	chr6:15420600-15422800	Enhancers	iPS-18 Cell Line	embryonic stem cell
19	chr6:15420600-15424200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
20	chr6:15420600-15426400	Weak transcription	HepG2	liver
21	chr6:15420800-15423000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
22	chr6:15420800-15423000	Enhancers	Brain Angular Gyrus	brain
23	chr6:15420800-15423200	Flanking Active TSS	GM12878-XiMat	blood
24	chr6:15420800-15423400	Enhancers	Fetal Kidney	kidney
25	chr6:15420800-15423600	Enhancers	iPS-20b Cell Line	embryonic stem cell
26	chr6:15420800-15423600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
27	chr6:15420800-15424000	Enhancers	Primary monocytes fromperipheralblood	blood
28	chr6:15420800-15424000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
29	chr6:15420800-15424600	Enhancers	Primary B cells from peripheral blood	blood
30	chr6:15421000-15422800	Enhancers	H9 Cell Line	embryonic stem cell
31	chr6:15421000-15422800	Enhancers	Fetal Thymus	thymus
32	chr6:15421000-15423800	Enhancers	Primary T helper cells fromperipheralblood	blood
33	chr6:15421000-15424200	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
34	chr6:15421000-15424200	Enhancers	Skeletal Muscle Female	skeletal muscle
35	chr6:15421000-15424400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
36	chr6:15421000-15424400	Enhancers	Primary T cells fromperipheralblood	blood
37	chr6:15421200-15422800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
38	chr6:15421200-15422800	Enhancers	Lung	lung
39	chr6:15421200-15423000	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
40	chr6:15421200-15423200	Enhancers	Dnd41	blood
41	chr6:15421200-15423400	Enhancers	Brain Substantia Nigra	brain
42	chr6:15421200-15423600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
43	chr6:15421200-15423600	Enhancers	Brain Anterior Caudate	brain
44	chr6:15421200-15423600	Enhancers	Brain Inferior Temporal Lobe	brain
45	chr6:15421200-15424400	Enhancers	Spleen	Spleen
46	chr6:15421200-15425200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
47	chr6:15421200-15427000	Weak transcription	Liver	Liver
48	chr6:15421200-15427600	Weak transcription	Duodenum Mucosa	Duodenum
49	chr6:15421400-15423800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
50	chr6:15421400-15424000	Enhancers	Primary T killer memory cells from peripheral blood	blood

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