Variant report

Variant	rs1963813
Chromosome Location	chr3:52733426-52733427
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr3:52732879-52733545	HepG2	liver:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:52733044..52735275-chr3:52738797..52740602,3	MCF-7	breast:
2	chr3:52719561..52722875-chr3:52731308..52733675,5	MCF-7	breast:

Variant related genes	Relation type
GLT8D1	TF binding region
ENSG00000163938	Chromatin interaction
ENSG00000163939	Chromatin interaction
ENSG00000016864	Chromatin interaction
ENSG00000114902	Chromatin interaction

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs11510435	0.96[AFR][1000 genomes]
rs17052357	0.88[AFR][1000 genomes]
rs17052404	0.94[AFR][1000 genomes]
rs4532127	0.97[AFR][1000 genomes]
rs56134416	0.90[AFR][1000 genomes]
rs56665533	0.94[AFR][1000 genomes]
rs58528592	0.93[AFR][1000 genomes]
rs59869286	0.92[AFR][1000 genomes]
rs60058353	0.94[AFR][1000 genomes]
rs60770874	0.97[AFR][1000 genomes]
rs6762788	0.91[AFR][1000 genomes]
rs6780397	0.95[AFR][1000 genomes]
rs6803492	0.86[AFR][1000 genomes]
rs72950424	0.92[AFR][1000 genomes]
rs72950437	0.96[AFR][1000 genomes]
rs72960212	0.97[AFR][1000 genomes]
rs72960260	0.94[AFR][1000 genomes]
rs73839129	0.92[AFR][1000 genomes]
rs934839	0.92[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	nsv984563	chr3:52516115-52867075	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	63 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:52721000-52734400	Strong transcription	Fetal Stomach	stomach
2	chr3:52721000-52738600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr3:52721200-52734400	Strong transcription	Primary monocytes fromperipheralblood	blood
4	chr3:52721400-52734000	Strong transcription	Primary B cells from cord blood	blood
5	chr3:52721400-52734200	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
6	chr3:52721400-52734400	Strong transcription	Brain Hippocampus Middle	brain
7	chr3:52721400-52734400	Strong transcription	Fetal Lung	lung
8	chr3:52721400-52734400	Strong transcription	Monocytes-CD14+_RO01746	blood
9	chr3:52721400-52734600	Strong transcription	Primary T cells from cord blood	blood
10	chr3:52721400-52735800	Strong transcription	Fetal Muscle Leg	muscle
11	chr3:52721600-52733600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
12	chr3:52721600-52734200	Strong transcription	HUES48 Cell Line	embryonic stem cell
13	chr3:52721600-52734200	Strong transcription	Duodenum Smooth Muscle	Duodenum
14	chr3:52721600-52734400	Strong transcription	Brain Inferior Temporal Lobe	brain
15	chr3:52721600-52734400	Strong transcription	Brain Dorsolateral Prefrontal Cortex	brain
16	chr3:52721600-52734400	Strong transcription	Thymus	Thymus
17	chr3:52721800-52734400	Strong transcription	NHDF-Ad	bronchial
18	chr3:52722000-52733600	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr3:52722000-52734200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
20	chr3:52722000-52734400	Strong transcription	Fetal Thymus	thymus
21	chr3:52722000-52734600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
22	chr3:52722400-52734400	Strong transcription	HUES64 Cell Line	embryonic stem cell
23	chr3:52722600-52734200	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
24	chr3:52722600-52734200	Strong transcription	Liver	Liver
25	chr3:52722600-52736600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
26	chr3:52722800-52734200	Strong transcription	Fetal Intestine Large	intestine
27	chr3:52723200-52734200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
28	chr3:52725600-52734400	Strong transcription	HepG2	liver
29	chr3:52727600-52735800	Strong transcription	Osteobl	bone
30	chr3:52727800-52734400	Strong transcription	NH-A	brain
31	chr3:52728400-52737600	Weak transcription	Stomach Mucosa	stomach
32	chr3:52728800-52734400	Strong transcription	Primary T helper cells PMA-I stimulated	--
33	chr3:52728800-52736400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
34	chr3:52729000-52738600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
35	chr3:52729400-52738000	Weak transcription	Small Intestine	intestine
36	chr3:52730000-52737600	Weak transcription	Fetal Heart	heart
37	chr3:52730000-52738800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
38	chr3:52730400-52738400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
39	chr3:52730400-52738600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
40	chr3:52730600-52736400	Weak transcription	Pancreas	Pancrea
41	chr3:52730600-52737400	Weak transcription	Pancreatic Islets	Pancreatic Islet
42	chr3:52730600-52738600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
43	chr3:52730600-52738600	Weak transcription	Esophagus	oesophagus
44	chr3:52731600-52738600	Weak transcription	H9 Cell Line	embryonic stem cell
45	chr3:52731800-52733800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
46	chr3:52731800-52734400	Strong transcription	Primary T cells fromperipheralblood	blood
47	chr3:52731800-52735200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
48	chr3:52731800-52737800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
49	chr3:52732000-52733600	Weak transcription	Fetal Kidney	kidney
50	chr3:52732000-52733600	Weak transcription	Lung	lung

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