Variant report

Variant	rs9834919
Chromosome Location	chr3:52608558-52608559
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	chr3:52537807..52540311-chr3:52607410..52609955,2	MCF-7	breast:

Extended variants
information (count: 25 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs10865972	0.90[LWK][hapmap]
rs13325325	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs1541495	0.90[LWK][hapmap]
rs17052143	1.00[EUR][1000 genomes]
rs28434358	1.00[EUR][1000 genomes]
rs28636773	1.00[EUR][1000 genomes]
rs34540591	1.00[EUR][1000 genomes]
rs35394357	1.00[EUR][1000 genomes]
rs4687614	0.90[LWK][hapmap]
rs9813653	1.00[EUR][1000 genomes]
rs9814016	0.83[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9814833	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9815559	1.00[EUR][1000 genomes]
rs9824342	1.00[EUR][1000 genomes]
rs9828432	1.00[EUR][1000 genomes]
rs9834363	1.00[EUR][1000 genomes]
rs9836894	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9842960	0.88[LWK][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs9843055	1.00[ASW][hapmap];0.81[LWK][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs9844178	1.00[EUR][1000 genomes]
rs9845752	1.00[EUR][1000 genomes]
rs9857947	1.00[EUR][1000 genomes]
rs9864989	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9868332	1.00[TSI][hapmap];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:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:52572400-52633000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr3:52574400-52623800	Strong transcription	Monocytes-CD14+_RO01746	blood
3	chr3:52576800-52625600	Strong transcription	Fetal Thymus	thymus
4	chr3:52578200-52625600	Strong transcription	Primary monocytes fromperipheralblood	blood
5	chr3:52585800-52627400	Weak transcription	Fetal Heart	heart
6	chr3:52587200-52719200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr3:52589600-52611600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr3:52591000-52688000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
9	chr3:52592200-52719200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
10	chr3:52592600-52610400	Weak transcription	A549	lung
11	chr3:52594400-52614800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
12	chr3:52595200-52631000	Weak transcription	Stomach Mucosa	stomach
13	chr3:52596000-52611800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
14	chr3:52596000-52612400	Weak transcription	Gastric	stomach
15	chr3:52596000-52622800	Weak transcription	K562	blood
16	chr3:52596000-52624200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
17	chr3:52596400-52611800	Weak transcription	Spleen	Spleen
18	chr3:52597400-52611600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
19	chr3:52597600-52608600	Weak transcription	H9 Cell Line	embryonic stem cell
20	chr3:52597600-52611800	Weak transcription	Pancreas	Pancrea
21	chr3:52597600-52612000	Weak transcription	Brain Substantia Nigra	brain
22	chr3:52597600-52612000	Weak transcription	Right Ventricle	heart
23	chr3:52597600-52612400	Weak transcription	Colonic Mucosa	Colon
24	chr3:52597600-52612600	Weak transcription	Esophagus	oesophagus
25	chr3:52597600-52612600	Weak transcription	Rectal Smooth Muscle	rectum
26	chr3:52597800-52611800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
27	chr3:52597800-52612400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
28	chr3:52597800-52612600	Weak transcription	Small Intestine	intestine
29	chr3:52598200-52608600	Weak transcription	Fetal Kidney	kidney
30	chr3:52598200-52609800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
31	chr3:52598200-52612400	Weak transcription	HMEC	breast
32	chr3:52598200-52612600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
33	chr3:52598200-52625200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
34	chr3:52598400-52608600	Weak transcription	HepG2	liver
35	chr3:52598400-52611800	Weak transcription	Fetal Brain Male	brain
36	chr3:52598600-52609800	Weak transcription	HSMMtube	muscle
37	chr3:52598800-52608600	Weak transcription	Colon Smooth Muscle	Colon
38	chr3:52599200-52609800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
39	chr3:52600600-52615400	Strong transcription	Duodenum Mucosa	Duodenum
40	chr3:52602200-52617400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
41	chr3:52602200-52623400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
42	chr3:52602600-52624400	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
43	chr3:52603000-52614200	Strong transcription	Thymus	Thymus
44	chr3:52603200-52617400	Strong transcription	Fetal Muscle Trunk	muscle
45	chr3:52603400-52625400	Strong transcription	Fetal Muscle Leg	muscle
46	chr3:52603600-52608600	Weak transcription	Hela-S3	cervix
47	chr3:52603600-52623800	Strong transcription	Liver	Liver
48	chr3:52603800-52616000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
49	chr3:52603800-52625400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
50	chr3:52604000-52614200	Strong transcription	Primary hematopoietic stem cells short term culture	blood

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