Variant report

Variant	rs1962345
Chromosome Location	chr3:150062703-150062704
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:12)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:12 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr3:150058583..150074355-chr3:150124068..150134356,51	MCF-7	breast:
2	chr3:150061653..150065321-chr3:150319922..150322637,3	MCF-7	breast:
3	chr3:149955913..149960046-chr3:150062431..150067841,6	MCF-7	breast:
4	chr3:150062408..150064817-chr5:441921..443855,2	MCF-7	breast:
5	chr3:150059766..150072041-chr3:150122033..150133129,50	MCF-7	breast:
6	chr3:150025835..150028165-chr3:150061988..150064477,2	MCF-7	breast:
7	chr3:150061806..150067641-chr3:150085085..150089827,11	MCF-7	breast:
8	chr3:150021332..150022052-chr3:150062236..150062966,2	MCF-7	breast:
9	chr3:150028795..150040018-chr3:150059749..150069074,18	MCF-7	breast:
10	chr3:150033272..150039330-chr3:150061780..150068166,12	MCF-7	breast:
11	chr3:150002984..150004852-chr3:150062532..150065282,3	MCF-7	breast:
12	chr3:150060725..150065011-chr3:150124332..150129241,6	K562	blood:

No data

Variant related genes	Relation type
ENSG00000244541	Chromatin interaction
ENSG00000180104	Chromatin interaction
ENSG00000221990	Chromatin interaction
ENSG00000198843	Chromatin interaction
ENSG00000196428	Chromatin interaction
ENSG00000120742	Chromatin interaction

Extended variants
information (count: 8 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs11924208	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11929253	0.82[ASN][1000 genomes]
rs2167178	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60243617	0.84[ASN][1000 genomes]
rs62271370	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7633948	0.81[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs7639816	0.82[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv829755	chr3:149992023-150156001	Enhancers Weak transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:52 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:150053000-150066600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr3:150058200-150062800	Weak transcription	Gastric	stomach
3	chr3:150058200-150067600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
4	chr3:150058400-150066000	Weak transcription	Aorta	Aorta
5	chr3:150058400-150067400	Weak transcription	Right Atrium	heart
6	chr3:150058600-150064600	Weak transcription	NHLF	lung
7	chr3:150059400-150063400	Enhancers	NHDF-Ad	bronchial
8	chr3:150059800-150064800	Weak transcription	Left Ventricle	heart
9	chr3:150060000-150063000	Weak transcription	Fetal Heart	heart
10	chr3:150060000-150063000	Weak transcription	HSMM	muscle
11	chr3:150060000-150064000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
12	chr3:150060000-150064800	Weak transcription	Adipose Nuclei	Adipose
13	chr3:150060400-150063000	Enhancers	A549	lung
14	chr3:150060400-150064200	Enhancers	ES-I3 Cell Line	embryonic stem cell
15	chr3:150060800-150062800	Enhancers	Hela-S3	cervix
16	chr3:150060800-150064600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
17	chr3:150060800-150065200	Weak transcription	Right Ventricle	heart
18	chr3:150060800-150067400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
19	chr3:150060800-150067400	Weak transcription	Fetal Muscle Trunk	muscle
20	chr3:150061600-150062800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
21	chr3:150061800-150062800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
22	chr3:150061800-150063000	Enhancers	Placenta	Placenta
23	chr3:150061800-150063200	Enhancers	HUES6 Cell Line	embryonic stem cell
24	chr3:150061800-150064200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
25	chr3:150061800-150064600	Enhancers	NHEK	skin
26	chr3:150061800-150065400	Enhancers	HUES64 Cell Line	embryonic stem cell
27	chr3:150061800-150065400	Enhancers	iPS-18 Cell Line	embryonic stem cell
28	chr3:150061800-150065600	Enhancers	HUES48 Cell Line	embryonic stem cell
29	chr3:150061800-150065600	Enhancers	iPS-15b Cell Line	embryonic stem cell
30	chr3:150061800-150065600	Enhancers	Fetal Lung	lung
31	chr3:150061800-150065800	Enhancers	Fetal Kidney	kidney
32	chr3:150061800-150071000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
33	chr3:150061800-150071000	Enhancers	HMEC	breast
34	chr3:150062000-150062800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
35	chr3:150062000-150063200	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
36	chr3:150062000-150063200	Enhancers	Breast Myoepithelial Primary Cells	Breast
37	chr3:150062000-150063400	Enhancers	H1 Cell Line	embryonic stem cell
38	chr3:150062000-150064400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
39	chr3:150062200-150064200	Weak transcription	H9 Cell Line	embryonic stem cell
40	chr3:150062200-150064800	Enhancers	Osteobl	bone
41	chr3:150062400-150062800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
42	chr3:150062400-150062800	Weak transcription	Muscle Satellite Cultured Cells	--
43	chr3:150062400-150063200	Enhancers	Fetal Intestine Large	intestine
44	chr3:150062400-150063200	Enhancers	HepG2	liver
45	chr3:150062400-150063400	Enhancers	Rectal Mucosa Donor 31	rectum
46	chr3:150062400-150064800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
47	chr3:150062600-150063000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
48	chr3:150062600-150063600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
49	chr3:150062600-150063600	Weak transcription	Placenta Amnion	Placenta Amnion
50	chr3:150062600-150064200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin

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