Variant report

Variant	rs56140856
Chromosome Location	chr3:24406261-24406262
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:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr3:24405687..24408183-chr3:24409709..24411597,2	MCF-7	breast:
2	chr3:24398676..24401231-chr3:24403091..24406584,3	MCF-7	breast:
3	chr3:24405318..24406958-chr3:24407481..24409434,2	K562	blood:
4	chr3:24403805..24406463-chr3:24492311..24494276,2	MCF-7	breast:
5	chr3:24404154..24407745-chr3:24409924..24412829,4	MCF-7	breast:
6	chr3:24401614..24403589-chr3:24404968..24406689,2	MCF-7	breast:
7	chr3:24401832..24411849-chr3:24534272..24539083,15	MCF-7	breast:
8	chr3:24403178..24405172-chr3:24405273..24407240,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000228791	Chromatin interaction
ENSG00000151090	Chromatin interaction

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

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

rs_ID	r²[population]
rs1505288	0.81[AFR][1000 genomes]
rs17014584	1.00[AFR][1000 genomes]
rs58351306	0.81[AFR][1000 genomes]
rs73825636	0.81[AFR][1000 genomes]
rs73825637	0.81[AFR][1000 genomes]
rs73825638	0.81[AFR][1000 genomes]
rs73825639	0.81[AFR][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	nsv834640	chr3:24339779-24493605	Enhancers Active TSS Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:24360400-24418000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr3:24394000-24406600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
3	chr3:24394000-24406600	Weak transcription	Ovary	ovary
4	chr3:24394000-24406600	Weak transcription	Sigmoid Colon	Sigmoid Colon
5	chr3:24394000-24407800	Weak transcription	Pancreas	Pancrea
6	chr3:24394000-24407800	Weak transcription	Stomach Smooth Muscle	stomach
7	chr3:24394000-24431400	Weak transcription	Gastric	stomach
8	chr3:24398200-24411800	Weak transcription	Psoas Muscle	Psoas
9	chr3:24399600-24406600	Weak transcription	Rectal Smooth Muscle	rectum
10	chr3:24401400-24406600	Weak transcription	K562	blood
11	chr3:24401400-24411800	Weak transcription	Left Ventricle	heart
12	chr3:24401600-24406600	Weak transcription	Cortex derived primary cultured neurospheres	brain
13	chr3:24402000-24406600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
14	chr3:24402400-24407800	Enhancers	Breast Myoepithelial Primary Cells	Breast
15	chr3:24403000-24408800	Weak transcription	Aorta	Aorta
16	chr3:24403600-24408000	Enhancers	Hela-S3	cervix
17	chr3:24403800-24406600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
18	chr3:24403800-24406800	Enhancers	Liver	Liver
19	chr3:24403800-24410400	Enhancers	Fetal Intestine Small	intestine
20	chr3:24404400-24410400	Enhancers	Stomach Mucosa	stomach
21	chr3:24404400-24410800	Enhancers	Fetal Intestine Large	intestine
22	chr3:24404800-24410200	Enhancers	HepG2	liver
23	chr3:24404800-24410400	Enhancers	Rectal Mucosa Donor 31	rectum
24	chr3:24405000-24406400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
25	chr3:24405000-24406600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
26	chr3:24405000-24406600	Weak transcription	Skeletal Muscle Male	skeletal muscle
27	chr3:24405000-24407800	Weak transcription	Small Intestine	intestine
28	chr3:24405000-24408600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
29	chr3:24405200-24406600	Weak transcription	Fetal Lung	lung
30	chr3:24405200-24406600	Weak transcription	HMEC	breast
31	chr3:24405400-24406400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
32	chr3:24405400-24406400	Weak transcription	Muscle Satellite Cultured Cells	--
33	chr3:24405400-24406600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
34	chr3:24405400-24410200	Enhancers	Duodenum Mucosa	Duodenum
35	chr3:24405600-24406600	Weak transcription	Adipose Nuclei	Adipose
36	chr3:24405800-24406400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
37	chr3:24405800-24406400	Weak transcription	NHDF-Ad	bronchial
38	chr3:24405800-24406600	Weak transcription	Skeletal Muscle Female	skeletal muscle
39	chr3:24405800-24407000	Weak transcription	NHLF	lung
40	chr3:24406000-24406400	Weak transcription	Duodenum Smooth Muscle	Duodenum
41	chr3:24406000-24407200	Enhancers	NH-A	brain
42	chr3:24406000-24407400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
43	chr3:24406200-24406600	Enhancers	NHEK	skin
44	chr3:24406200-24406800	Flanking Active TSS	A549	lung
45	chr3:24406200-24407000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
46	chr3:24406200-24407400	Weak transcription	Fetal Kidney	kidney
47	chr3:24406200-24407400	Enhancers	HUVEC	blood vessel
48	chr3:24406200-24407800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
49	chr3:24406200-24409000	Enhancers	Colon Smooth Muscle	Colon
50	chr3:24406200-24409200	Weak transcription	Pancreatic Islets	Pancreatic Islet

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