Variant report

Variant	rs2505934
Chromosome Location	chr6:80844292-80844293
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	chr6:80843054..80844740-chr6:81198148..81200503,2	MCF-7	breast:

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs10943700	1.00[EUR][1000 genomes]
rs151643	1.00[EUR][1000 genomes]
rs151647	1.00[EUR][1000 genomes]
rs151659	1.00[EUR][1000 genomes]
rs16891543	1.00[CEU][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs16891547	1.00[CEU][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs16891556	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs187066	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs192130	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs2182852	1.00[EUR][1000 genomes]
rs239499	1.00[EUR][1000 genomes]
rs239503	1.00[EUR][1000 genomes]
rs239510	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs239513	1.00[EUR][1000 genomes]
rs239557	1.00[CEU][hapmap]
rs239559	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs239561	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs239565	1.00[EUR][1000 genomes]
rs240215	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs240223	1.00[EUR][1000 genomes]
rs240227	1.00[EUR][1000 genomes]
rs2476827	0.84[AFR][1000 genomes]
rs2490225	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs2490229	1.00[EUR][1000 genomes]
rs2490231	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs2490233	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs2490237	1.00[CEU][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs2490238	1.00[CEU][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs2490242	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2490246	0.85[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs2490247	1.00[CEU][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs2505931	1.00[CEU][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs2505933	0.95[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs2505936	1.00[CEU][hapmap];0.80[YRI][hapmap];1.00[EUR][1000 genomes]
rs2505938	0.98[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs2505941	1.00[CEU][hapmap];0.80[YRI][hapmap];1.00[EUR][1000 genomes]
rs2505943	1.00[EUR][1000 genomes]
rs2505947	1.00[EUR][1000 genomes]
rs2769338	1.00[EUR][1000 genomes]
rs2997392	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs2997393	0.95[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs56935289	0.88[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs58231181	1.00[EUR][1000 genomes]
rs58621476	1.00[EUR][1000 genomes]
rs58678861	0.88[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs60398437	0.85[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs6454141	1.00[EUR][1000 genomes]
rs6912898	1.00[EUR][1000 genomes]
rs6925435	1.00[EUR][1000 genomes]
rs7748996	1.00[EUR][1000 genomes]
rs806842	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs9448918	1.00[EUR][1000 genomes]
rs9448921	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs9448922	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	nsv830708	chr6:80844283-80996876	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:78 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:80817000-80852800	Weak transcription	Psoas Muscle	Psoas
2	chr6:80818000-80861400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
3	chr6:80818000-80866000	Weak transcription	Primary T helper cells PMA-I stimulated	--
4	chr6:80829400-80844600	Weak transcription	Fetal Thymus	thymus
5	chr6:80829400-80852000	Weak transcription	Fetal Stomach	stomach
6	chr6:80832400-80844600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
7	chr6:80836200-80852800	Weak transcription	Right Ventricle	heart
8	chr6:80836400-80855800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
9	chr6:80836400-80863000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
10	chr6:80836400-80891200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr6:80836600-80846800	Weak transcription	Rectal Mucosa Donor 29	rectum
12	chr6:80836600-80852800	Weak transcription	Pancreas	Pancrea
13	chr6:80836800-80846000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
14	chr6:80837000-80852600	Weak transcription	Duodenum Mucosa	Duodenum
15	chr6:80837000-80853000	Weak transcription	Fetal Kidney	kidney
16	chr6:80837000-80895200	Weak transcription	Fetal Intestine Small	intestine
17	chr6:80837400-80854200	Weak transcription	Brain Substantia Nigra	brain
18	chr6:80837600-80853000	Weak transcription	Brain Hippocampus Middle	brain
19	chr6:80838000-80846800	Strong transcription	Liver	Liver
20	chr6:80838400-80852800	Weak transcription	Brain Inferior Temporal Lobe	brain
21	chr6:80838400-80853400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
22	chr6:80838600-80852800	Weak transcription	Aorta	Aorta
23	chr6:80838600-80857400	Weak transcription	Primary hematopoietic stem cells	blood
24	chr6:80838600-80873200	Weak transcription	HUES6 Cell Line	embryonic stem cell
25	chr6:80838800-80845400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr6:80838800-80846400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
27	chr6:80838800-80852000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
28	chr6:80838800-80852000	Weak transcription	Muscle Satellite Cultured Cells	--
29	chr6:80838800-80852000	Weak transcription	NHDF-Ad	bronchial
30	chr6:80838800-80852200	Weak transcription	NH-A	brain
31	chr6:80838800-80852400	Weak transcription	HSMMtube	muscle
32	chr6:80838800-80852600	Weak transcription	NHLF	lung
33	chr6:80838800-80853200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
34	chr6:80839200-80873200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
35	chr6:80839200-80889600	Weak transcription	Lung	lung
36	chr6:80839400-80845200	Weak transcription	Placenta	Placenta
37	chr6:80839400-80845400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
38	chr6:80839600-80852800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
39	chr6:80839600-80857600	Weak transcription	Fetal Muscle Trunk	muscle
40	chr6:80839600-80859600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
41	chr6:80840000-80845600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
42	chr6:80840000-80845800	Weak transcription	Brain Angular Gyrus	brain
43	chr6:80840000-80852000	Weak transcription	Fetal Lung	lung
44	chr6:80840000-80860800	Weak transcription	Fetal Intestine Large	intestine
45	chr6:80840200-80855000	Weak transcription	Primary T helper cells fromperipheralblood	blood
46	chr6:80841000-80847400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
47	chr6:80841000-80852400	Weak transcription	Stomach Smooth Muscle	stomach
48	chr6:80841000-80852800	Weak transcription	Colonic Mucosa	Colon
49	chr6:80841000-80859200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
50	chr6:80841000-80860800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood

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