Variant report

Variant	rs28737224
Chromosome Location	chr6:144682546-144682547
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:144682093..144683894-chr6:144723958..144726060,2	MCF-7	breast:
2	chr6:144681801..144683494-chr6:144686425..144688154,2	K562	blood:

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs11970041	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12110410	0.85[AMR][1000 genomes]
rs12110413	0.85[AMR][1000 genomes]
rs12178630	0.91[AMR][1000 genomes]
rs17073670	0.91[AMR][1000 genomes]
rs2223428	0.91[AMR][1000 genomes]
rs2328570	0.91[AMR][1000 genomes]
rs57580585	0.85[AMR][1000 genomes]
rs6570620	0.91[AMR][1000 genomes]
rs6570621	0.91[AMR][1000 genomes]
rs6902637	0.83[AMR][1000 genomes]
rs6929328	0.85[AMR][1000 genomes]
rs6932679	0.91[AMR][1000 genomes]
rs9321971	0.91[AMR][1000 genomes]
rs9484866	0.91[AMR][1000 genomes]
rs9484868	0.91[AMR][1000 genomes]
rs9484869	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9484870	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9484871	0.85[AMR][1000 genomes]
rs9496929	0.91[AMR][1000 genomes]
rs9496933	0.91[AMR][1000 genomes]
rs9496934	0.91[AMR][1000 genomes]
rs9496939	0.91[AMR][1000 genomes]
rs9496940	0.91[AMR][1000 genomes]
rs9496941	0.91[AMR][1000 genomes]
rs9496942	0.91[AMR][1000 genomes]
rs9496946	0.91[AMR][1000 genomes]
rs9496947	1.00[AMR][1000 genomes]
rs9496959	0.85[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830832	chr6:144572378-144759023	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	esv2422260	chr6:144574591-144731630	Weak transcription Flanking Active TSS ZNF genes & repeats Enhancers Active TSS Genic enhancers Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv1031253	chr6:144599055-144883013	Weak transcription Strong transcription Genic enhancers Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
4	nsv538461	chr6:144599055-144883013	Weak transcription Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Enhancers Genic enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:89 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:144653200-144684600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr6:144663200-144685800	Weak transcription	Brain Substantia Nigra	brain
3	chr6:144665400-144696400	Weak transcription	Fetal Intestine Small	intestine
4	chr6:144670800-144691200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr6:144671000-144683200	Weak transcription	Gastric	stomach
6	chr6:144671200-144692000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr6:144671800-144683200	Weak transcription	HSMM	muscle
8	chr6:144671800-144685200	Weak transcription	HUES64 Cell Line	embryonic stem cell
9	chr6:144672000-144683200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
10	chr6:144673200-144683000	Weak transcription	Rectal Mucosa Donor 29	rectum
11	chr6:144673200-144683200	Weak transcription	Liver	Liver
12	chr6:144673200-144683200	Weak transcription	Rectal Mucosa Donor 31	rectum
13	chr6:144673400-144683200	Weak transcription	Stomach Mucosa	stomach
14	chr6:144673400-144683400	Weak transcription	Colon Smooth Muscle	Colon
15	chr6:144673400-144699600	Weak transcription	Fetal Stomach	stomach
16	chr6:144673800-144682800	Weak transcription	Fetal Muscle Leg	muscle
17	chr6:144674200-144683400	Weak transcription	Stomach Smooth Muscle	stomach
18	chr6:144675400-144685600	Weak transcription	Primary hematopoietic stem cells	blood
19	chr6:144675600-144692000	Weak transcription	Dnd41	blood
20	chr6:144675800-144684000	Enhancers	Primary T helper cells fromperipheralblood	blood
21	chr6:144675800-144687000	Enhancers	Primary T helper cells PMA-I stimulated	--
22	chr6:144676000-144683200	Weak transcription	Primary monocytes fromperipheralblood	blood
23	chr6:144676000-144683200	Weak transcription	Monocytes-CD14+_RO01746	blood
24	chr6:144676000-144683400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
25	chr6:144676000-144685800	Weak transcription	Thymus	Thymus
26	chr6:144676000-144688200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
27	chr6:144676600-144685200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
28	chr6:144677400-144683400	Weak transcription	GM12878-XiMat	blood
29	chr6:144679000-144685400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
30	chr6:144680600-144682800	Weak transcription	Aorta	Aorta
31	chr6:144680600-144682800	Weak transcription	Lung	lung
32	chr6:144680600-144682800	Weak transcription	Ovary	ovary
33	chr6:144680600-144683200	Weak transcription	Psoas Muscle	Psoas
34	chr6:144680600-144683200	Weak transcription	HUVEC	blood vessel
35	chr6:144681200-144683000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
36	chr6:144681200-144684000	Enhancers	Skeletal Muscle Female	skeletal muscle
37	chr6:144681400-144682600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
38	chr6:144681400-144683200	Enhancers	Hela-S3	cervix
39	chr6:144681400-144684000	Enhancers	Breast Myoepithelial Primary Cells	Breast
40	chr6:144681400-144684000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
41	chr6:144681600-144682600	Enhancers	Primary T killer memory cells from peripheral blood	blood
42	chr6:144681600-144682600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
43	chr6:144681600-144682800	Enhancers	NHDF-Ad	bronchial
44	chr6:144681600-144683400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
45	chr6:144681600-144683800	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
46	chr6:144681600-144683800	Enhancers	Right Atrium	heart
47	chr6:144681600-144683800	Enhancers	HSMMtube	muscle
48	chr6:144681600-144684000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
49	chr6:144681600-144684600	Genic enhancers	HepG2	liver
50	chr6:144681600-144685600	Enhancers	Adipose Nuclei	Adipose

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