Variant report

Variant	rs56976952
Chromosome Location	chr3:24403707-24403708
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	chr3:24398676..24401231-chr3:24403091..24406584,3	MCF-7	breast:
2	chr3:24373698..24376081-chr3:24402445..24404292,2	K562	blood:
3	chr3:24403178..24405172-chr3:24405273..24407240,2	MCF-7	breast:
4	chr3:24393600..24395634-chr3:24401674..24403934,2	K562	blood:
5	chr3:24402472..24403984-chr3:24412122..24414786,2	MCF-7	breast:
6	chr3:24401832..24411849-chr3:24534272..24539083,15	MCF-7	breast:
7	chr3:24399026..24404145-chr3:24535255..24539197,6	MCF-7	breast:
8	chr3:24400228..24405741-chr3:24531182..24533191,4	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000228791	Chromatin interaction
ENSG00000151090	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs17014561	1.00[ASN][1000 genomes]
rs17014584	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55751089	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55889875	0.82[EUR][1000 genomes]
rs55945877	0.82[EUR][1000 genomes]
rs73041657	0.82[EUR][1000 genomes]
rs73041659	0.82[EUR][1000 genomes]
rs73041663	0.82[EUR][1000 genomes]
rs73043726	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73043728	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73043733	1.00[ASN][1000 genomes]
rs73043736	1.00[ASN][1000 genomes]
rs73043737	1.00[ASN][1000 genomes]
rs73043745	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73043748	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73043750	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73043760	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73043761	0.82[EUR][1000 genomes];1.00[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	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:35 , 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	chr3:24393600-24403800	Weak transcription	Duodenum Smooth Muscle	Duodenum
3	chr3:24394000-24406600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
4	chr3:24394000-24406600	Weak transcription	Ovary	ovary
5	chr3:24394000-24406600	Weak transcription	Sigmoid Colon	Sigmoid Colon
6	chr3:24394000-24407800	Weak transcription	Pancreas	Pancrea
7	chr3:24394000-24407800	Weak transcription	Stomach Smooth Muscle	stomach
8	chr3:24394000-24431400	Weak transcription	Gastric	stomach
9	chr3:24394200-24403800	Weak transcription	Adipose Nuclei	Adipose
10	chr3:24395000-24404400	Weak transcription	Fetal Intestine Large	intestine
11	chr3:24395200-24404400	Weak transcription	Skeletal Muscle Female	skeletal muscle
12	chr3:24398000-24404600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr3:24398200-24403800	Weak transcription	Fetal Intestine Small	intestine
14	chr3:24398200-24411800	Weak transcription	Psoas Muscle	Psoas
15	chr3:24399600-24406600	Weak transcription	Rectal Smooth Muscle	rectum
16	chr3:24400400-24404600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
17	chr3:24400800-24404400	Weak transcription	Pancreatic Islets	Pancreatic Islet
18	chr3:24401400-24406600	Weak transcription	K562	blood
19	chr3:24401400-24411800	Weak transcription	Left Ventricle	heart
20	chr3:24401600-24406600	Weak transcription	Cortex derived primary cultured neurospheres	brain
21	chr3:24401800-24404000	Weak transcription	Colon Smooth Muscle	Colon
22	chr3:24401800-24404800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
23	chr3:24401800-24405600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
24	chr3:24401800-24406000	Weak transcription	Fetal Kidney	kidney
25	chr3:24402000-24406600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
26	chr3:24402200-24404600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
27	chr3:24402400-24407800	Enhancers	Breast Myoepithelial Primary Cells	Breast
28	chr3:24402600-24403800	Weak transcription	Liver	Liver
29	chr3:24402600-24404600	Enhancers	HepG2	liver
30	chr3:24403000-24405200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
31	chr3:24403000-24408800	Weak transcription	Aorta	Aorta
32	chr3:24403200-24405800	Enhancers	NHDF-Ad	bronchial
33	chr3:24403400-24404400	Weak transcription	Fetal Lung	lung
34	chr3:24403600-24405000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
35	chr3:24403600-24408000	Enhancers	Hela-S3	cervix

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