Variant report

Variant	rs73399092
Chromosome Location	chr15:41391076-41391077
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	chr15:41377305..41379555-chr15:41389039..41391103,2	MCF-7	breast:
2	chr15:41389694..41391207-chr15:41395733..41397571,2	MCF-7	breast:

Extended variants
information (count: 63 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:58)

rs_ID	r²[population]
rs10152296	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11070319	0.94[AMR][1000 genomes]
rs11070320	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11630905	0.86[AFR][1000 genomes];0.94[AMR][1000 genomes]
rs16971263	0.83[AMR][1000 genomes]
rs16971463	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2007255	0.84[AMR][1000 genomes]
rs28455970	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28528813	0.89[AMR][1000 genomes]
rs2899010	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2925348	0.85[AFR][1000 genomes];0.94[AMR][1000 genomes]
rs2925349	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2927067	0.83[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs2928147	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2928149	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2928150	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2928154	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2947492	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes]
rs2947495	0.90[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs2947496	0.90[AFR][1000 genomes];0.94[AMR][1000 genomes]
rs2955812	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs3101435	0.83[AMR][1000 genomes]
rs3101438	1.00[AMR][1000 genomes]
rs3101441	0.85[AFR][1000 genomes];0.94[AMR][1000 genomes]
rs4468583	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs474351	0.99[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs480549	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs487779	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4923894	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4923895	0.85[AFR][1000 genomes];0.94[AMR][1000 genomes]
rs4924533	0.84[AMR][1000 genomes]
rs4924534	0.83[AFR][1000 genomes];0.88[AMR][1000 genomes]
rs496499	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs513680	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs518137	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs525551	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs538903	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes]
rs56955512	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57008457	0.93[AFR][1000 genomes];0.94[AMR][1000 genomes]
rs57385441	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58142514	0.91[AFR][1000 genomes];0.94[AMR][1000 genomes]
rs59405359	0.87[AFR][1000 genomes];0.94[AMR][1000 genomes]
rs690773	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs691069	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs691445	1.00[EUR][1000 genomes]
rs691722	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs692703	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes]
rs7162003	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes]
rs7167166	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7172555	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7173146	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7174513	1.00[AMR][1000 genomes]
rs7183191	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes]
rs8032956	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8034461	0.94[AMR][1000 genomes]
rs8035532	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8043232	0.89[AMR][1000 genomes]
rs9806344	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1053462	chr15:41270067-41396094	Weak transcription Strong transcription ZNF genes & repeats Enhancers Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
2	nsv569229	chr15:41361138-41483682	Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	37 gene(s)	inside rSNPs	diseases
3	nsv904107	chr15:41361138-41493013	Weak transcription Strong transcription Flanking Active TSS Active TSS Enhancers Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	38 gene(s)	inside rSNPs	diseases
4	nsv569230	chr15:41384649-41483682	Flanking Active TSS Strong transcription Weak transcription Enhancers Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	36 gene(s)	inside rSNPs	diseases
5	nsv904108	chr15:41384649-41486990	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	37 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:41355000-41392000	Strong transcription	Fetal Thymus	thymus
2	chr15:41355000-41392400	Strong transcription	Monocytes-CD14+_RO01746	blood
3	chr15:41355000-41393800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
4	chr15:41355400-41393200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr15:41356800-41392200	Strong transcription	HUES64 Cell Line	embryonic stem cell
6	chr15:41358000-41393600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr15:41358200-41392000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
8	chr15:41361200-41407200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
9	chr15:41369000-41391800	Weak transcription	Right Atrium	heart
10	chr15:41372800-41392400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
11	chr15:41378000-41397600	Weak transcription	Small Intestine	intestine
12	chr15:41380400-41393400	Strong transcription	Fetal Intestine Small	intestine
13	chr15:41383200-41406800	Weak transcription	A549	lung
14	chr15:41383800-41407400	Weak transcription	Esophagus	oesophagus
15	chr15:41384000-41407400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
16	chr15:41384200-41391400	Strong transcription	Hela-S3	cervix
17	chr15:41384200-41395600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr15:41384400-41396000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
19	chr15:41384400-41396000	Weak transcription	Psoas Muscle	Psoas
20	chr15:41384400-41407400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
21	chr15:41385200-41406000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
22	chr15:41386200-41398400	Weak transcription	Gastric	stomach
23	chr15:41386200-41407400	Weak transcription	Aorta	Aorta
24	chr15:41386600-41407400	Weak transcription	Colonic Mucosa	Colon
25	chr15:41386800-41396400	Weak transcription	Fetal Brain Male	brain
26	chr15:41386800-41398200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
27	chr15:41386800-41398400	Weak transcription	Brain Angular Gyrus	brain
28	chr15:41386800-41405400	Weak transcription	Spleen	Spleen
29	chr15:41386800-41406800	Weak transcription	Placenta Amnion	Placenta Amnion
30	chr15:41386800-41406800	Weak transcription	Right Ventricle	heart
31	chr15:41386800-41407000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
32	chr15:41386800-41407200	Weak transcription	HSMMtube	muscle
33	chr15:41386800-41407400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
34	chr15:41387000-41398200	Weak transcription	Lung	lung
35	chr15:41387000-41400400	Weak transcription	Brain Germinal Matrix	brain
36	chr15:41387200-41395200	Weak transcription	Brain Substantia Nigra	brain
37	chr15:41387200-41399200	Weak transcription	GM12878-XiMat	blood
38	chr15:41387200-41406000	Weak transcription	Brain Hippocampus Middle	brain
39	chr15:41387200-41406600	Weak transcription	Pancreas	Pancrea
40	chr15:41387400-41407200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
41	chr15:41388000-41394400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
42	chr15:41388000-41398400	Weak transcription	Primary hematopoietic stem cells	blood
43	chr15:41388000-41406600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
44	chr15:41388200-41406600	Weak transcription	Adipose Nuclei	Adipose
45	chr15:41388400-41391200	Weak transcription	Primary neutrophils fromperipheralblood	blood
46	chr15:41388400-41406400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
47	chr15:41388600-41395000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
48	chr15:41388600-41395000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
49	chr15:41388600-41395000	Weak transcription	Osteobl	bone
50	chr15:41388600-41396000	Weak transcription	HUVEC	blood vessel

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