Variant report

Variant	rs56903771
Chromosome Location	chr15:52236053-52236054
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:52234756..52237147-chr15:52240029..52242355,2	MCF-7	breast:

Extended variants
information (count: 13 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs28416491	0.94[ASN][1000 genomes]
rs3803365	0.82[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs3985808	1.00[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs57897477	1.00[AMR][1000 genomes]
rs58370000	1.00[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs58471786	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs58601413	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs59784585	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs60409555	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs60700084	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv569409	chr15:52028914-52268144	Strong transcription Weak transcription Flanking Active TSS Enhancers Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
2	esv2830255	chr15:52133914-52274863	Weak transcription Flanking Active TSS Strong transcription Active TSS Enhancers ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
3	nsv1053788	chr15:52223389-52307138	Weak transcription Strong transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:52179600-52259800	Strong transcription	Monocytes-CD14+_RO01746	blood
2	chr15:52194400-52236800	Weak transcription	Fetal Kidney	kidney
3	chr15:52194400-52239000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
4	chr15:52200400-52262200	Weak transcription	Stomach Mucosa	stomach
5	chr15:52201000-52238800	Weak transcription	Pancreatic Islets	Pancreatic Islet
6	chr15:52204800-52238800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr15:52210000-52239000	Weak transcription	Colon Smooth Muscle	Colon
8	chr15:52211600-52237600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
9	chr15:52211600-52239200	Weak transcription	Right Ventricle	heart
10	chr15:52212400-52241600	Weak transcription	Small Intestine	intestine
11	chr15:52216000-52238600	Weak transcription	Pancreas	Pancrea
12	chr15:52217200-52238400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
13	chr15:52217200-52238800	Weak transcription	Brain Angular Gyrus	brain
14	chr15:52217600-52238800	Weak transcription	Skeletal Muscle Male	skeletal muscle
15	chr15:52217800-52237400	Weak transcription	Aorta	Aorta
16	chr15:52217800-52237400	Weak transcription	Brain Anterior Caudate	brain
17	chr15:52217800-52239000	Weak transcription	Gastric	stomach
18	chr15:52218000-52243200	Weak transcription	Fetal Heart	heart
19	chr15:52222600-52259800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
20	chr15:52222800-52236200	Strong transcription	Fetal Stomach	stomach
21	chr15:52223200-52245400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
22	chr15:52224000-52237400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
23	chr15:52224200-52237200	Weak transcription	Brain Cingulate Gyrus	brain
24	chr15:52226000-52255200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
25	chr15:52226200-52242600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr15:52226200-52254800	Strong transcription	Thymus	Thymus
27	chr15:52226200-52255000	Strong transcription	Primary T cells fromperipheralblood	blood
28	chr15:52226200-52259400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
29	chr15:52226800-52237200	Weak transcription	Spleen	Spleen
30	chr15:52227400-52255000	Strong transcription	Liver	Liver
31	chr15:52227400-52258400	Strong transcription	Dnd41	blood
32	chr15:52227800-52255000	Strong transcription	Rectal Mucosa Donor 31	rectum
33	chr15:52228400-52238400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
34	chr15:52228600-52236400	Weak transcription	Placenta Amnion	Placenta Amnion
35	chr15:52229200-52237000	Weak transcription	Brain Inferior Temporal Lobe	brain
36	chr15:52229200-52238200	Weak transcription	Brain Germinal Matrix	brain
37	chr15:52229400-52249000	Strong transcription	Cortex derived primary cultured neurospheres	brain
38	chr15:52229800-52254200	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
39	chr15:52230000-52237400	Weak transcription	Ovary	ovary
40	chr15:52230200-52238600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
41	chr15:52230800-52237400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
42	chr15:52230800-52237600	Weak transcription	Adipose Nuclei	Adipose
43	chr15:52231000-52236200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
44	chr15:52232000-52236600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
45	chr15:52232200-52237400	Weak transcription	Brain Hippocampus Middle	brain
46	chr15:52232200-52238600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
47	chr15:52232200-52238800	Weak transcription	K562	blood
48	chr15:52232200-52239000	Weak transcription	HUVEC	blood vessel
49	chr15:52232400-52237000	Weak transcription	Lung	lung
50	chr15:52232800-52256000	Strong transcription	Fetal Muscle Leg	muscle

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