Variant report

Variant	rs60163288
Chromosome Location	chr6:56663324-56663325
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:56661763..56663956-chr6:56708072..56709642,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000231441	Chromatin interaction
ENSG00000151914	Chromatin interaction

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs13190784	0.87[ASN][1000 genomes]
rs13191826	1.00[ASN][1000 genomes]
rs13200868	1.00[ASN][1000 genomes]
rs16888186	1.00[ASN][1000 genomes]
rs1903332	1.00[ASN][1000 genomes]
rs34966024	1.00[ASN][1000 genomes]
rs35440408	1.00[ASN][1000 genomes]
rs35609883	1.00[ASN][1000 genomes]
rs35886823	1.00[ASN][1000 genomes]
rs58980183	1.00[ASN][1000 genomes]
rs61601344	1.00[ASN][1000 genomes]
rs6904535	1.00[ASN][1000 genomes]
rs6905658	0.87[ASN][1000 genomes]
rs6910414	1.00[ASN][1000 genomes]
rs6925518	0.87[ASN][1000 genomes]
rs6926742	0.87[ASN][1000 genomes]
rs6934714	1.00[ASN][1000 genomes]
rs7758867	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv491933	chr6:56177722-57171010	Active TSS Enhancers Strong transcription Weak transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
2	nsv934026	chr6:56382056-57184218	Flanking Bivalent TSS/Enh Strong transcription Weak transcription Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Bivalent/Poised TSS Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
3	nsv533050	chr6:56504480-57297586	Active TSS Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
4	nsv1021651	chr6:56569444-56966319	Flanking Active TSS Enhancers Weak transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
5	nsv538228	chr6:56569444-56966319	Active TSS Weak transcription Enhancers Genic enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
6	nsv1034418	chr6:56651245-56700449	Weak transcription Flanking Active TSS Enhancers Genic enhancers Active TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:66 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:56654600-56664400	Enhancers	Skeletal Muscle Male	skeletal muscle
2	chr6:56655800-56667400	Weak transcription	Stomach Mucosa	stomach
3	chr6:56657800-56664400	Enhancers	HSMMtube	muscle
4	chr6:56658600-56664400	Enhancers	Fetal Heart	heart
5	chr6:56658800-56664600	Enhancers	Muscle Satellite Cultured Cells	--
6	chr6:56659000-56664200	Enhancers	NHDF-Ad	bronchial
7	chr6:56659400-56663400	Enhancers	ES-I3 Cell Line	embryonic stem cell
8	chr6:56659400-56663400	Enhancers	HUES6 Cell Line	embryonic stem cell
9	chr6:56659400-56665200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr6:56659400-56674000	Weak transcription	Fetal Muscle Leg	muscle
11	chr6:56659800-56664400	Enhancers	iPS-18 Cell Line	embryonic stem cell
12	chr6:56659800-56665800	Enhancers	GM12878-XiMat	blood
13	chr6:56659800-56667200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
14	chr6:56659800-56667400	Weak transcription	Aorta	Aorta
15	chr6:56659800-56671000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr6:56660200-56663400	Enhancers	Colon Smooth Muscle	Colon
17	chr6:56660200-56664000	Enhancers	NHLF	lung
18	chr6:56660200-56667600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
19	chr6:56660400-56663400	Enhancers	Adipose Nuclei	Adipose
20	chr6:56660600-56664200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
21	chr6:56661000-56664000	Enhancers	Pancreatic Islets	Pancreatic Islet
22	chr6:56661200-56663400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
23	chr6:56661200-56667600	Weak transcription	Duodenum Smooth Muscle	Duodenum
24	chr6:56661400-56664200	Enhancers	Osteobl	bone
25	chr6:56661400-56664400	Enhancers	A549	lung
26	chr6:56661400-56667400	Weak transcription	HMEC	breast
27	chr6:56661400-56667400	Weak transcription	NHEK	skin
28	chr6:56661400-56672800	Weak transcription	Ovary	ovary
29	chr6:56661800-56667400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
30	chr6:56661800-56669400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
31	chr6:56662000-56665000	Genic enhancers	HSMM	muscle
32	chr6:56662000-56667200	Weak transcription	Brain Germinal Matrix	brain
33	chr6:56662000-56667200	Weak transcription	HUVEC	blood vessel
34	chr6:56662000-56667400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
35	chr6:56662200-56665400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
36	chr6:56662200-56667000	Weak transcription	Cortex derived primary cultured neurospheres	brain
37	chr6:56662200-56667200	Weak transcription	Brain Angular Gyrus	brain
38	chr6:56662200-56667600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
39	chr6:56662200-56668400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
40	chr6:56662400-56663600	Weak transcription	Right Ventricle	heart
41	chr6:56662400-56666600	Weak transcription	Brain Substantia Nigra	brain
42	chr6:56662400-56667400	Weak transcription	H9 Cell Line	embryonic stem cell
43	chr6:56662400-56667400	Weak transcription	HUES64 Cell Line	embryonic stem cell
44	chr6:56662400-56667400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
45	chr6:56662600-56663600	Weak transcription	Psoas Muscle	Psoas
46	chr6:56662600-56667400	Weak transcription	H1 Cell Line	embryonic stem cell
47	chr6:56662600-56672800	Weak transcription	Left Ventricle	heart
48	chr6:56662800-56663800	Enhancers	Hela-S3	cervix
49	chr6:56662800-56667400	Weak transcription	Brain Inferior Temporal Lobe	brain
50	chr6:56663000-56663400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

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