Variant report

Variant	rs62284741
Chromosome Location	chr3:155522664-155522665
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:155522507..155525053-chr3:155587874..155590161,2	MCF-7	breast:
2	chr3:155476567..155478417-chr3:155522248..155524245,2	MCF-7	breast:
3	chr3:155520264..155525290-chr3:155586627..155590296,8	K562	blood:
4	chr3:155520823..155524412-chr3:155585049..155590112,5	MCF-7	breast:
5	chr3:155521670..155525457-chr3:155569550..155572694,3	MCF-7	breast:
6	chr3:155522613..155525345-chr3:155572139..155575204,3	K562	blood:
7	chr3:155522036..155526613-chr3:155586597..155592084,8	K562	blood:

Variant related genes	Relation type
ENSG00000163655	Chromatin interaction
ENSG00000169359	Chromatin interaction
ENSG00000241307	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs12486921	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs358713	0.86[EUR][1000 genomes]
rs358721	0.82[EUR][1000 genomes]
rs358724	0.84[EUR][1000 genomes]
rs358725	0.86[EUR][1000 genomes]
rs358732	0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs358737	0.95[EUR][1000 genomes]
rs358742	0.89[EUR][1000 genomes]
rs358749	0.87[EUR][1000 genomes]
rs395667	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs404570	0.91[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs427139	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs492858	0.82[EUR][1000 genomes]
rs500347	0.84[EUR][1000 genomes]
rs62284742	0.91[AFR][1000 genomes];0.99[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv877680	chr3:155438022-155723064	Active TSS Flanking Active TSS Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
2	nsv1014031	chr3:155481097-155524777	Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Enhancers Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
3	nsv999641	chr3:155481097-155534616	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
4	esv2753744	chr3:155487298-155707298	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:77 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:155487600-155524200	Weak transcription	Fetal Heart	heart
2	chr3:155488200-155523200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
3	chr3:155489000-155523200	Weak transcription	Thymus	Thymus
4	chr3:155491600-155523200	Weak transcription	Rectal Smooth Muscle	rectum
5	chr3:155494400-155523600	Weak transcription	Small Intestine	intestine
6	chr3:155500400-155523200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
7	chr3:155506600-155523000	Weak transcription	Colon Smooth Muscle	Colon
8	chr3:155506800-155523200	Weak transcription	Fetal Kidney	kidney
9	chr3:155507400-155522800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
10	chr3:155508800-155522800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
11	chr3:155508800-155523200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr3:155509000-155523400	Weak transcription	HUES48 Cell Line	embryonic stem cell
13	chr3:155509000-155523400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
14	chr3:155509200-155523200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
15	chr3:155509200-155523200	Weak transcription	Brain Germinal Matrix	brain
16	chr3:155509400-155523000	Weak transcription	A549	lung
17	chr3:155509400-155523200	Weak transcription	Fetal Muscle Trunk	muscle
18	chr3:155509600-155523200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
19	chr3:155509600-155523200	Weak transcription	Esophagus	oesophagus
20	chr3:155509600-155523400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
21	chr3:155509800-155522800	Weak transcription	Spleen	Spleen
22	chr3:155509800-155523000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
23	chr3:155509800-155523000	Weak transcription	Pancreas	Pancrea
24	chr3:155509800-155523200	Weak transcription	Aorta	Aorta
25	chr3:155509800-155523200	Weak transcription	Right Ventricle	heart
26	chr3:155509800-155523400	Weak transcription	Fetal Lung	lung
27	chr3:155510000-155522800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
28	chr3:155510000-155523000	Weak transcription	Adipose Nuclei	Adipose
29	chr3:155510000-155523000	Weak transcription	Brain Anterior Caudate	brain
30	chr3:155510000-155523000	Weak transcription	Brain Inferior Temporal Lobe	brain
31	chr3:155510000-155523000	Weak transcription	Lung	lung
32	chr3:155510000-155523000	Weak transcription	Skeletal Muscle Male	skeletal muscle
33	chr3:155510000-155523000	Weak transcription	Stomach Smooth Muscle	stomach
34	chr3:155510000-155523200	Weak transcription	HUES6 Cell Line	embryonic stem cell
35	chr3:155510000-155523200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
36	chr3:155510000-155523200	Weak transcription	Gastric	stomach
37	chr3:155510000-155523400	Weak transcription	Fetal Stomach	stomach
38	chr3:155510200-155523200	Weak transcription	Cortex derived primary cultured neurospheres	brain
39	chr3:155510200-155523200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
40	chr3:155510200-155523200	Weak transcription	Left Ventricle	heart
41	chr3:155510400-155523200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
42	chr3:155510800-155523000	Weak transcription	Primary T helper cells fromperipheralblood	blood
43	chr3:155511200-155523000	Weak transcription	Primary T cells from cord blood	blood
44	chr3:155512000-155523000	Weak transcription	Pancreatic Islets	Pancreatic Islet
45	chr3:155512000-155523200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
46	chr3:155513200-155523000	Weak transcription	Rectal Mucosa Donor 31	rectum
47	chr3:155513400-155523000	Weak transcription	Rectal Mucosa Donor 29	rectum
48	chr3:155514800-155523000	Weak transcription	Duodenum Smooth Muscle	Duodenum
49	chr3:155515000-155523000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
50	chr3:155515000-155523000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--

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