Variant report

Variant	rs62255309
Chromosome Location	chr3:23864073-23864074
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:23849205..23854945-chr3:23862070..23869570,11	MCF-7	breast:
2	chr3:23860207..23865148-chr3:23865238..23868314,5	MCF-7	breast:
3	chr3:23849520..23854083-chr3:23862798..23866767,7	K562	blood:

Variant related genes	Relation type
ENSG00000170142	Chromatin interaction

Extended variants
information (count: 10 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs62253360	1.00[EUR][1000 genomes]
rs62253386	1.00[EUR][1000 genomes]
rs62253388	1.00[EUR][1000 genomes]
rs62253391	1.00[EUR][1000 genomes]
rs62253392	1.00[EUR][1000 genomes]
rs62253414	1.00[EUR][1000 genomes]
rs62253415	1.00[EUR][1000 genomes]
rs62255353	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv533980	chr3:23445901-24311972	ZNF genes & repeats Strong transcription Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	64 gene(s)	inside rSNPs	diseases
2	nsv834637	chr3:23703928-23886144	Flanking Active TSS Weak transcription Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:114 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:23853000-23865800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
2	chr3:23853000-23866200	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr3:23853000-23867200	Weak transcription	Aorta	Aorta
4	chr3:23853000-23867800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr3:23853000-23867800	Weak transcription	Primary T cells fromperipheralblood	blood
6	chr3:23853000-23867800	Weak transcription	Esophagus	oesophagus
7	chr3:23853000-23867800	Weak transcription	Fetal Brain Female	brain
8	chr3:23853000-23867800	Weak transcription	Right Atrium	heart
9	chr3:23853000-23868000	Weak transcription	NH-A	brain
10	chr3:23853000-23868400	Weak transcription	HSMMtube	muscle
11	chr3:23853000-23876000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
12	chr3:23853000-23876000	Weak transcription	Fetal Stomach	stomach
13	chr3:23853000-23882000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
14	chr3:23853000-23887400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
15	chr3:23853200-23893200	Weak transcription	Thymus	Thymus
16	chr3:23853400-23864400	Weak transcription	H1 Cell Line	embryonic stem cell
17	chr3:23853400-23866000	Weak transcription	HMEC	breast
18	chr3:23853400-23867400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
19	chr3:23853400-23885600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
20	chr3:23853600-23866000	Weak transcription	Liver	Liver
21	chr3:23853800-23865200	Weak transcription	Pancreatic Islets	Pancreatic Islet
22	chr3:23854000-23867400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
23	chr3:23854200-23870000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
24	chr3:23854200-23871400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
25	chr3:23854400-23865200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
26	chr3:23854400-23865200	Weak transcription	Rectal Smooth Muscle	rectum
27	chr3:23854400-23867800	Weak transcription	Fetal Kidney	kidney
28	chr3:23854400-23876800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
29	chr3:23854600-23866600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
30	chr3:23854600-23871000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
31	chr3:23854600-23871200	Weak transcription	Fetal Brain Male	brain
32	chr3:23854800-23866600	Weak transcription	HepG2	liver
33	chr3:23854800-23871000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
34	chr3:23855000-23869600	Weak transcription	Dnd41	blood
35	chr3:23855000-23900200	Weak transcription	HSMM	muscle
36	chr3:23856400-23867800	Weak transcription	Hela-S3	cervix
37	chr3:23856600-23866000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
38	chr3:23857400-23865200	Weak transcription	Fetal Lung	lung
39	chr3:23857600-23864800	Weak transcription	Rectal Mucosa Donor 29	rectum
40	chr3:23857600-23866600	Weak transcription	Rectal Mucosa Donor 31	rectum
41	chr3:23857600-23870800	Weak transcription	Small Intestine	intestine
42	chr3:23857600-23894000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
43	chr3:23857600-23900000	Weak transcription	Fetal Muscle Trunk	muscle
44	chr3:23857800-23865600	Weak transcription	Stomach Mucosa	stomach
45	chr3:23859000-23866600	Weak transcription	Lung	lung
46	chr3:23860200-23866600	Weak transcription	Pancreas	Pancrea
47	chr3:23860400-23866000	Weak transcription	Primary hematopoietic stem cells	blood
48	chr3:23860400-23866000	Weak transcription	Gastric	stomach
49	chr3:23861000-23864800	Enhancers	Skeletal Muscle Female	skeletal muscle
50	chr3:23861000-23868800	Enhancers	HUES6 Cell Line	embryonic stem cell

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