Variant report

Variant	rs3733042
Chromosome Location	chr3:52734225-52734226
allele	C/G
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	chr3:52733568-52735088	MCF10A-Er-Src	breast:	n/a	n/a
2	POLR2A	chr3:52733659-52734589	MCF10A-Er-Src	breast:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:52733044..52735275-chr3:52738797..52740602,3	MCF-7	breast:

Variant related genes	Relation type
SPCS1	TF binding region
GLT8D1	TF binding region
ENSG00000114902	Chromatin interaction
ENSG00000016864	Chromatin interaction

Extended variants
information (count: 5 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs2286797	1.00[EUR][1000 genomes]
rs2286799	1.00[EUR][1000 genomes]
rs3774356	1.00[EUR][1000 genomes]
rs4629327	1.00[EUR][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	chr3:52721400-52734400	Strong transcription	Brain Hippocampus Middle	brain
5	chr3:52721400-52734400	Strong transcription	Fetal Lung	lung
6	chr3:52721400-52734400	Strong transcription	Monocytes-CD14+_RO01746	blood
7	chr3:52721400-52734600	Strong transcription	Primary T cells from cord blood	blood
8	chr3:52721400-52735800	Strong transcription	Fetal Muscle Leg	muscle
9	chr3:52721600-52734400	Strong transcription	Brain Inferior Temporal Lobe	brain
10	chr3:52721600-52734400	Strong transcription	Brain Dorsolateral Prefrontal Cortex	brain
11	chr3:52721600-52734400	Strong transcription	Thymus	Thymus
12	chr3:52721800-52734400	Strong transcription	NHDF-Ad	bronchial
13	chr3:52722000-52734400	Strong transcription	Fetal Thymus	thymus
14	chr3:52722000-52734600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr3:52722400-52734400	Strong transcription	HUES64 Cell Line	embryonic stem cell
16	chr3:52722600-52736600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
17	chr3:52725600-52734400	Strong transcription	HepG2	liver
18	chr3:52727600-52735800	Strong transcription	Osteobl	bone
19	chr3:52727800-52734400	Strong transcription	NH-A	brain
20	chr3:52728400-52737600	Weak transcription	Stomach Mucosa	stomach
21	chr3:52728800-52734400	Strong transcription	Primary T helper cells PMA-I stimulated	--
22	chr3:52728800-52736400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
23	chr3:52729000-52738600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
24	chr3:52729400-52738000	Weak transcription	Small Intestine	intestine
25	chr3:52730000-52737600	Weak transcription	Fetal Heart	heart
26	chr3:52730000-52738800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
27	chr3:52730400-52738400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
28	chr3:52730400-52738600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
29	chr3:52730600-52736400	Weak transcription	Pancreas	Pancrea
30	chr3:52730600-52737400	Weak transcription	Pancreatic Islets	Pancreatic Islet
31	chr3:52730600-52738600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
32	chr3:52730600-52738600	Weak transcription	Esophagus	oesophagus
33	chr3:52731600-52738600	Weak transcription	H9 Cell Line	embryonic stem cell
34	chr3:52731800-52734400	Strong transcription	Primary T cells fromperipheralblood	blood
35	chr3:52731800-52735200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
36	chr3:52731800-52737800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
37	chr3:52732000-52734400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
38	chr3:52732000-52734400	Strong transcription	Duodenum Mucosa	Duodenum
39	chr3:52732000-52736200	Weak transcription	Ovary	ovary
40	chr3:52732000-52737600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
41	chr3:52732000-52737600	Weak transcription	Brain Cingulate Gyrus	brain
42	chr3:52732000-52737600	Weak transcription	A549	lung
43	chr3:52732000-52737600	Weak transcription	Hela-S3	cervix
44	chr3:52732000-52737600	Weak transcription	K562	blood
45	chr3:52732000-52737800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
46	chr3:52732000-52737800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
47	chr3:52732000-52737800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
48	chr3:52732000-52737800	Weak transcription	Colonic Mucosa	Colon
49	chr3:52732000-52737800	Weak transcription	Spleen	Spleen
50	chr3:52732000-52737800	Weak transcription	NHEK	skin

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