Variant report

Variant	rs59689935
Chromosome Location	chr6:56574521-56574522
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:56569145..56571634-chr6:56573957..56575917,2	MCF-7	breast:
2	chr6:56572610..56574602-chr6:56715205..56717521,2	MCF-7	breast:
3	chr6:56565438..56567877-chr6:56572534..56575262,2	K562	blood:
4	chr6:56573945..56574696-chr6:56715916..56716847,2	MCF-7	breast:
5	chr6:56573542..56574688-chr6:56622197..56623128,5	MCF-7	breast:
6	chr6:56572377..56575419-chr6:56576421..56579962,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000151914	Chromatin interaction

Extended variants
information (count: 11 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs58655846	0.87[AFR][1000 genomes]
rs58905074	0.93[AFR][1000 genomes]
rs59866096	0.82[AFR][1000 genomes]
rs60360068	1.00[AFR][1000 genomes]
rs60804698	1.00[AFR][1000 genomes]
rs61312094	1.00[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	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

No data

Chromatin state (count:76 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:56549800-56578000	Weak transcription	Gastric	stomach
2	chr6:56554000-56574600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
3	chr6:56555400-56574600	Weak transcription	H1 Cell Line	embryonic stem cell
4	chr6:56558200-56578200	Weak transcription	Aorta	Aorta
5	chr6:56558400-56577800	Weak transcription	Ovary	ovary
6	chr6:56558400-56579400	Weak transcription	Right Ventricle	heart
7	chr6:56558600-56577800	Weak transcription	Fetal Heart	heart
8	chr6:56559800-56577800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr6:56560200-56579800	Weak transcription	Fetal Muscle Leg	muscle
10	chr6:56560400-56577200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr6:56563000-56578000	Weak transcription	Psoas Muscle	Psoas
12	chr6:56564000-56577800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
13	chr6:56565000-56578000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
14	chr6:56565200-56574600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
15	chr6:56568000-56580400	Weak transcription	Brain Germinal Matrix	brain
16	chr6:56568600-56577800	Weak transcription	Duodenum Smooth Muscle	Duodenum
17	chr6:56570000-56574600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr6:56570000-56585600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
19	chr6:56570200-56574600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
20	chr6:56570200-56577800	Weak transcription	Skeletal Muscle Female	skeletal muscle
21	chr6:56570200-56590000	Weak transcription	Right Atrium	heart
22	chr6:56571400-56575200	Enhancers	Brain Cingulate Gyrus	brain
23	chr6:56571400-56575200	Enhancers	Brain Hippocampus Middle	brain
24	chr6:56571600-56576400	Enhancers	Brain Anterior Caudate	brain
25	chr6:56571800-56575200	Enhancers	Brain Angular Gyrus	brain
26	chr6:56571800-56575200	Enhancers	Brain Substantia Nigra	brain
27	chr6:56572000-56578000	Weak transcription	Left Ventricle	heart
28	chr6:56572400-56579400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
29	chr6:56572600-56574600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
30	chr6:56572800-56575200	Enhancers	Rectal Smooth Muscle	rectum
31	chr6:56573000-56574800	Enhancers	Primary monocytes fromperipheralblood	blood
32	chr6:56573000-56577800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
33	chr6:56573200-56575200	Enhancers	Liver	Liver
34	chr6:56573200-56575200	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
35	chr6:56573400-56575000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
36	chr6:56573400-56575000	Enhancers	GM12878-XiMat	blood
37	chr6:56573400-56577600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
38	chr6:56573600-56575200	Enhancers	iPS-18 Cell Line	embryonic stem cell
39	chr6:56573600-56575400	Enhancers	HUES48 Cell Line	embryonic stem cell
40	chr6:56573600-56576400	Enhancers	iPS-20b Cell Line	embryonic stem cell
41	chr6:56573600-56577800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
42	chr6:56573800-56574600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
43	chr6:56573800-56574800	Enhancers	NHLF	lung
44	chr6:56573800-56577600	Weak transcription	HSMMtube	muscle
45	chr6:56573800-56577800	Weak transcription	Brain Inferior Temporal Lobe	brain
46	chr6:56573800-56577800	Weak transcription	Stomach Smooth Muscle	stomach
47	chr6:56573800-56577800	Weak transcription	HepG2	liver
48	chr6:56574000-56575000	Enhancers	NH-A	brain
49	chr6:56574000-56575200	Enhancers	Muscle Satellite Cultured Cells	--
50	chr6:56574000-56575200	Enhancers	A549	lung

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