Variant report

Variant	rs60640690
Chromosome Location	chr6:150162997-150162998
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:150160714..150164051-chr6:150166023..150170073,4	MCF-7	breast:
2	chr6:150157110..150158839-chr6:150161991..150164233,2	K562	blood:
3	chr6:150161516..150164235-chr6:150221796..150224745,2	K562	blood:
4	chr6:150160122..150165164-chr6:150183114..150187569,12	MCF-7	breast:
5	chr6:150161672..150163347-chr6:150225089..150227561,2	MCF-7	breast:
6	chr6:150161574..150163748-chr6:150174739..150177271,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000216906	Chromatin interaction
ENSG00000268592	Chromatin interaction
ENSG00000120256	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs11968879	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17078923	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59026959	0.86[EUR][1000 genomes]
rs59035385	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs60328093	1.00[ASN][1000 genomes]
rs60475279	1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs61745766	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6899595	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6919437	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73610596	0.86[EUR][1000 genomes]
rs73612411	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7744111	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7762484	1.00[EUR][1000 genomes]
rs9478983	0.86[EUR][1000 genomes];1.00[ASN][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	nsv886762	chr6:149866452-150174507	Weak transcription Genic enhancers Bivalent/Poised TSS Active TSS Strong transcription Enhancers Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
2	esv1803291	chr6:150018508-150164190	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	nsv886763	chr6:150091219-150174507	Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
4	nsv886764	chr6:150114745-150393683	Weak transcription Bivalent Enhancer Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
5	nsv517022	chr6:150145001-150426272	Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Strong transcription Enhancers Bivalent/Poised TSS Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:85 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:150073800-150182400	Weak transcription	Fetal Brain Male	brain
2	chr6:150094400-150167200	Weak transcription	Rectal Smooth Muscle	rectum
3	chr6:150105800-150176400	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr6:150112600-150167200	Weak transcription	Colon Smooth Muscle	Colon
5	chr6:150119000-150164000	Weak transcription	Right Ventricle	heart
6	chr6:150120000-150164600	Weak transcription	Fetal Kidney	kidney
7	chr6:150141400-150167200	Weak transcription	Right Atrium	heart
8	chr6:150146200-150167000	Weak transcription	Psoas Muscle	Psoas
9	chr6:150147800-150163600	Weak transcription	Fetal Brain Female	brain
10	chr6:150150600-150166400	Weak transcription	Placenta Amnion	Placenta Amnion
11	chr6:150152400-150165400	Weak transcription	HSMMtube	muscle
12	chr6:150152800-150172600	Weak transcription	Aorta	Aorta
13	chr6:150153000-150163600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
14	chr6:150153000-150167000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
15	chr6:150153000-150167800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
16	chr6:150155800-150182600	Weak transcription	Dnd41	blood
17	chr6:150156400-150168400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
18	chr6:150157600-150167000	Weak transcription	Duodenum Smooth Muscle	Duodenum
19	chr6:150158600-150163800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr6:150158600-150165400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
21	chr6:150158600-150167200	Weak transcription	Adipose Nuclei	Adipose
22	chr6:150158800-150163400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
23	chr6:150158800-150176400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
24	chr6:150159000-150163600	Weak transcription	Brain Germinal Matrix	brain
25	chr6:150159000-150165400	Weak transcription	Cortex derived primary cultured neurospheres	brain
26	chr6:150159200-150163400	Weak transcription	Esophagus	oesophagus
27	chr6:150159200-150172800	Weak transcription	Spleen	Spleen
28	chr6:150160600-150163600	Weak transcription	Ovary	ovary
29	chr6:150160800-150163400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
30	chr6:150161200-150164000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
31	chr6:150161200-150164600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
32	chr6:150161400-150168200	Weak transcription	Pancreatic Islets	Pancreatic Islet
33	chr6:150161600-150163000	Enhancers	Placenta	Placenta
34	chr6:150161600-150164200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
35	chr6:150162000-150164200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
36	chr6:150162000-150167400	Weak transcription	Rectal Mucosa Donor 31	rectum
37	chr6:150162200-150163400	Weak transcription	Duodenum Mucosa	Duodenum
38	chr6:150162200-150163600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
39	chr6:150162200-150163600	Weak transcription	Fetal Intestine Small	intestine
40	chr6:150162200-150163600	Weak transcription	Gastric	stomach
41	chr6:150162200-150163600	Weak transcription	Lung	lung
42	chr6:150162200-150163800	Weak transcription	HMEC	breast
43	chr6:150162200-150165400	Strong transcription	Fetal Stomach	stomach
44	chr6:150162200-150166800	Strong transcription	Brain Anterior Caudate	brain
45	chr6:150162200-150167000	Weak transcription	HSMM	muscle
46	chr6:150162200-150167400	Weak transcription	HUVEC	blood vessel
47	chr6:150162200-150168400	Weak transcription	Sigmoid Colon	Sigmoid Colon
48	chr6:150162200-150175800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
49	chr6:150162400-150163200	Weak transcription	Skeletal Muscle Female	skeletal muscle
50	chr6:150162400-150163200	Weak transcription	HepG2	liver

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