Variant report

Variant	rs3206653
Chromosome Location	chr3:49771943-49771944
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:49763340..49765220-chr3:49771723..49774304,2	MCF-7	breast:

Extended variants
information (count: 10 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs13061156	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13071087	1.00[CEU][hapmap];0.87[AMR][1000 genomes]
rs13100791	1.00[CEU][hapmap];0.87[AMR][1000 genomes]
rs35620248	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36116071	0.87[AMR][1000 genomes]
rs61745903	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs71324984	0.81[AMR][1000 genomes]
rs71324987	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv1796352	chr3:49687101-49949959	Genic enhancers Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	90 gene(s)	inside rSNPs	diseases
2	nsv967216	chr3:49764885-49776535	Strong transcription Weak transcription Genic enhancers ZNF genes & repeats Enhancers	TF binding region Chromatin interactive region	4 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	chr3:49762000-49773800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr3:49762000-49775000	Weak transcription	Psoas Muscle	Psoas
3	chr3:49762000-49778000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr3:49762400-49772200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
5	chr3:49762400-49773000	Weak transcription	Fetal Heart	heart
6	chr3:49762400-49776800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr3:49762400-49781600	Strong transcription	Fetal Stomach	stomach
8	chr3:49762600-49774600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr3:49762600-49776400	Strong transcription	Fetal Brain Female	brain
10	chr3:49762600-49776800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr3:49762600-49777000	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
12	chr3:49762600-49777200	Strong transcription	Primary neutrophils fromperipheralblood	blood
13	chr3:49762600-49777600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
14	chr3:49762600-49781800	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
15	chr3:49762600-49785200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
16	chr3:49762600-49809000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
17	chr3:49762800-49775600	Strong transcription	Fetal Thymus	thymus
18	chr3:49762800-49776400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
19	chr3:49762800-49776600	Strong transcription	Cortex derived primary cultured neurospheres	brain
20	chr3:49763000-49776400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
21	chr3:49763000-49776600	Strong transcription	Placenta	Placenta
22	chr3:49763000-49776800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
23	chr3:49763000-49784800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
24	chr3:49763200-49776400	Strong transcription	Dnd41	blood
25	chr3:49763400-49773600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
26	chr3:49764000-49776000	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
27	chr3:49764000-49776400	Strong transcription	Rectal Mucosa Donor 29	rectum
28	chr3:49764000-49781800	Strong transcription	Fetal Muscle Leg	muscle
29	chr3:49764200-49776600	Strong transcription	iPS-20b Cell Line	embryonic stem cell
30	chr3:49764200-49776600	Strong transcription	Primary T cells from cord blood	blood
31	chr3:49764800-49776600	Strong transcription	Fetal Muscle Trunk	muscle
32	chr3:49765800-49772000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
33	chr3:49765800-49775200	Weak transcription	Stomach Mucosa	stomach
34	chr3:49765800-49775400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
35	chr3:49765800-49785800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
36	chr3:49767000-49773600	Strong transcription	Thymus	Thymus
37	chr3:49767400-49775800	Strong transcription	Liver	Liver
38	chr3:49767400-49776400	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
39	chr3:49767400-49776400	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
40	chr3:49767400-49776400	Strong transcription	Primary T helper cells fromperipheralblood	blood
41	chr3:49767400-49776400	Strong transcription	Adipose Nuclei	Adipose
42	chr3:49767400-49777600	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
43	chr3:49767600-49773600	Strong transcription	Brain Hippocampus Middle	brain
44	chr3:49767600-49773600	Strong transcription	Lung	lung
45	chr3:49767600-49775800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
46	chr3:49767600-49776000	Strong transcription	GM12878-XiMat	blood
47	chr3:49767600-49776400	Strong transcription	Ovary	ovary
48	chr3:49767600-49776400	Strong transcription	Osteobl	bone
49	chr3:49767600-49776600	Strong transcription	HUES64 Cell Line	embryonic stem cell
50	chr3:49767600-49776600	Strong transcription	Rectal Mucosa Donor 31	rectum

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