Variant report

Variant	rs6728767
Chromosome Location	chr2:15389195-15389196
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 27 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10199552	0.81[AMR][1000 genomes]
rs10929355	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10929356	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10929357	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs11686627	0.83[AMR][1000 genomes]
rs11904635	0.82[AMR][1000 genomes]
rs12692259	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs1989380	0.84[AMR][1000 genomes]
rs2042144	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs3755127	0.81[AMR][1000 genomes]
rs3805093	0.85[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs3828463	0.84[AMR][1000 genomes]
rs4465744	0.83[AMR][1000 genomes]
rs4668889	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4668890	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs4668891	0.82[AMR][1000 genomes]
rs6431688	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6431689	0.82[AMR][1000 genomes]
rs6711181	0.82[AMR][1000 genomes]
rs6728863	0.92[AMR][1000 genomes]
rs6738994	0.82[AMR][1000 genomes]
rs721858	0.81[AMR][1000 genomes]
rs929735	0.82[AMR][1000 genomes]
rs962616	0.81[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv515567	chr2:15004748-15906778	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Strong transcription ZNF genes & repeats Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
2	nsv529077	chr2:15143950-15722947	Weak transcription ZNF genes & repeats Strong transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	nsv948649	chr2:15273933-15572834	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:54 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:15352400-15389400	Weak transcription	Fetal Thymus	thymus
2	chr2:15352800-15402000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr2:15353000-15391600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr2:15357600-15391600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
5	chr2:15359200-15391600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
6	chr2:15364400-15399400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
7	chr2:15365000-15442400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr2:15369000-15391200	Weak transcription	Cortex derived primary cultured neurospheres	brain
9	chr2:15369200-15411800	Weak transcription	HSMMtube	muscle
10	chr2:15371200-15391800	Weak transcription	Aorta	Aorta
11	chr2:15371400-15468400	Weak transcription	Esophagus	oesophagus
12	chr2:15371600-15399600	Weak transcription	Gastric	stomach
13	chr2:15372800-15391800	Weak transcription	Pancreas	Pancrea
14	chr2:15372800-15393400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
15	chr2:15372800-15393800	Weak transcription	Fetal Kidney	kidney
16	chr2:15372800-15394200	Weak transcription	Fetal Muscle Trunk	muscle
17	chr2:15372800-15399400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
18	chr2:15372800-15400600	Weak transcription	Ovary	ovary
19	chr2:15372800-15411400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
20	chr2:15372800-15414400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
21	chr2:15372800-15414400	Weak transcription	Rectal Mucosa Donor 29	rectum
22	chr2:15372800-15414400	Weak transcription	Rectal Mucosa Donor 31	rectum
23	chr2:15372800-15432600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
24	chr2:15373000-15414000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
25	chr2:15373200-15396000	Weak transcription	Primary B cells from peripheral blood	blood
26	chr2:15374600-15398400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
27	chr2:15374800-15394000	Weak transcription	Adipose Nuclei	Adipose
28	chr2:15374800-15395600	Weak transcription	Liver	Liver
29	chr2:15374800-15399600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
30	chr2:15374800-15413200	Weak transcription	Sigmoid Colon	Sigmoid Colon
31	chr2:15375000-15390600	Weak transcription	Fetal Lung	lung
32	chr2:15375000-15446000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
33	chr2:15375000-15469000	Weak transcription	Psoas Muscle	Psoas
34	chr2:15375200-15392400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
35	chr2:15375200-15399200	Weak transcription	Primary T helper cells fromperipheralblood	blood
36	chr2:15375200-15414400	Weak transcription	Stomach Smooth Muscle	stomach
37	chr2:15375400-15391200	Weak transcription	Primary hematopoietic stem cells	blood
38	chr2:15376000-15391800	Weak transcription	Monocytes-CD14+_RO01746	blood
39	chr2:15376200-15395600	Weak transcription	HepG2	liver
40	chr2:15378800-15391600	Weak transcription	Primary B cells from cord blood	blood
41	chr2:15378800-15399400	Weak transcription	Fetal Intestine Large	intestine
42	chr2:15381400-15391200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
43	chr2:15382200-15414400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
44	chr2:15383600-15414400	Weak transcription	Skeletal Muscle Female	skeletal muscle
45	chr2:15384600-15415200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
46	chr2:15385200-15391200	Weak transcription	K562	blood
47	chr2:15385600-15391800	Weak transcription	Fetal Intestine Small	intestine
48	chr2:15385600-15403000	Weak transcription	Fetal Stomach	stomach
49	chr2:15385800-15392000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
50	chr2:15386000-15391800	Weak transcription	Breast Myoepithelial Primary Cells	Breast

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