Variant report

Variant	rs16944305
Chromosome Location	chr15:45789712-45789713
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	chr15:45722640..45724819-chr15:45788982..45790770,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000166920	Chromatin interaction

Extended variants
information (count: 96 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:94)

rs_ID	r²[population]
rs10152775	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10152792	0.93[YRI][hapmap];0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1153841	1.00[MEX][hapmap]
rs1288647	1.00[ASN][1000 genomes]
rs1288849	1.00[MEX][hapmap]
rs13376	1.00[MEX][hapmap];0.93[AMR][1000 genomes]
rs1442797	1.00[MEX][hapmap];0.93[AMR][1000 genomes]
rs1529353	0.96[YRI][hapmap];0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1529354	1.00[ASW][hapmap];1.00[CHD][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1547488	1.00[MEX][hapmap]
rs1547489	1.00[MEX][hapmap]
rs1547490	1.00[MEX][hapmap]
rs1559892	0.83[ASW][hapmap];1.00[CHD][hapmap];0.91[LWK][hapmap];1.00[MEX][hapmap];0.89[MKK][hapmap];0.96[YRI][hapmap];0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1629871	1.00[MEX][hapmap]
rs16944196	0.83[ASW][hapmap];1.00[CHD][hapmap];0.94[LWK][hapmap];1.00[MEX][hapmap];0.89[MKK][hapmap];0.96[YRI][hapmap];0.89[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs16945588	1.00[MEX][hapmap];0.86[AMR][1000 genomes]
rs16945605	0.86[AMR][1000 genomes]
rs1768457	1.00[ASN][1000 genomes]
rs1970374	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2120016	0.82[YRI][hapmap]
rs2412958	0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2467861	1.00[ASN][1000 genomes]
rs2467874	1.00[MEX][hapmap]
rs2467875	1.00[MEX][hapmap]
rs2486279	1.00[ASN][1000 genomes]
rs3858908	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4598849	0.93[AMR][1000 genomes]
rs57263027	0.86[AMR][1000 genomes]
rs57668312	0.87[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58055978	1.00[EUR][1000 genomes]
rs58078831	1.00[EUR][1000 genomes]
rs60561729	0.93[AMR][1000 genomes]
rs61169737	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs61186343	1.00[EUR][1000 genomes]
rs61500896	1.00[EUR][1000 genomes]
rs61756712	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6493153	0.83[ASW][hapmap];1.00[CHD][hapmap];0.91[LWK][hapmap];1.00[MEX][hapmap];0.89[MKK][hapmap];0.96[YRI][hapmap];0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6493158	0.80[YRI][hapmap]
rs6493159	1.00[EUR][1000 genomes]
rs679569	1.00[MEX][hapmap];0.86[AMR][1000 genomes]
rs7163098	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7165846	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7166434	1.00[ASW][hapmap];1.00[CHD][hapmap];0.89[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.93[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7168313	0.83[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs7168672	0.83[ASW][hapmap];1.00[CHD][hapmap];0.91[LWK][hapmap];1.00[MEX][hapmap];0.89[MKK][hapmap];0.93[YRI][hapmap];0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7170941	0.93[YRI][hapmap];0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7173046	0.83[ASW][hapmap];1.00[CHD][hapmap];0.91[LWK][hapmap];1.00[MEX][hapmap];0.89[MKK][hapmap];0.93[YRI][hapmap];0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7183382	1.00[MEX][hapmap];0.93[AMR][1000 genomes]
rs719018	1.00[MEX][hapmap];0.93[AMR][1000 genomes]
rs719019	1.00[MEX][hapmap];0.93[AMR][1000 genomes]
rs73412479	0.85[AMR][1000 genomes]
rs73412484	0.85[AMR][1000 genomes]
rs73412488	0.85[AMR][1000 genomes]
rs73412490	0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73414454	0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73414486	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73416403	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73416407	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73416479	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73416484	1.00[EUR][1000 genomes]
rs73416487	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73416493	1.00[EUR][1000 genomes]
rs73418308	1.00[EUR][1000 genomes]
rs73418310	1.00[EUR][1000 genomes]
rs73418311	1.00[EUR][1000 genomes]
rs73418314	1.00[EUR][1000 genomes]
rs73418316	1.00[EUR][1000 genomes]
rs73418320	1.00[EUR][1000 genomes]
rs73418387	1.00[EUR][1000 genomes]
rs73418395	1.00[EUR][1000 genomes]
rs73418401	1.00[EUR][1000 genomes]
rs73420403	1.00[EUR][1000 genomes]
rs73420405	1.00[EUR][1000 genomes]
rs73420406	1.00[EUR][1000 genomes]
rs73420408	1.00[EUR][1000 genomes]
rs73420409	1.00[EUR][1000 genomes]
rs73420412	1.00[EUR][1000 genomes]
rs73420415	1.00[EUR][1000 genomes]
rs73420427	0.93[AMR][1000 genomes]
rs73420437	0.93[AMR][1000 genomes]
rs73420438	0.93[AMR][1000 genomes]
rs73420456	0.93[AMR][1000 genomes]
rs7342662	1.00[MEX][hapmap];0.93[AMR][1000 genomes]
rs7495403	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs751819	1.00[MEX][hapmap];0.93[AMR][1000 genomes]
rs8023437	0.84[LWK][hapmap]
rs8025600	1.00[MEX][hapmap];0.93[AMR][1000 genomes]
rs8027324	0.93[AMR][1000 genomes]
rs8029983	0.83[ASW][hapmap];0.91[LWK][hapmap];1.00[MEX][hapmap];0.89[MKK][hapmap];0.93[YRI][hapmap];0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8034420	0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs8042179	0.83[ASW][hapmap];1.00[CHD][hapmap];0.91[LWK][hapmap];1.00[MEX][hapmap];0.89[MKK][hapmap];0.93[YRI][hapmap];0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8042253	0.86[AMR][1000 genomes]
rs8042662	0.93[AMR][1000 genomes]
rs9672808	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv932147	chr15:45319178-45872076	Bivalent/Poised TSS Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Weak transcription Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	87 gene(s)	inside rSNPs	diseases
2	nsv1045556	chr15:45777396-45884854	Strong transcription Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	38 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:62 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:45751200-45801600	Weak transcription	Rectal Smooth Muscle	rectum
2	chr15:45754200-45801600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr15:45757000-45794600	Weak transcription	Colonic Mucosa	Colon
4	chr15:45757000-45801800	Weak transcription	Gastric	stomach
5	chr15:45767200-45813600	Weak transcription	Psoas Muscle	Psoas
6	chr15:45769200-45812000	Weak transcription	Small Intestine	intestine
7	chr15:45769400-45791800	Weak transcription	NH-A	brain
8	chr15:45769400-45794600	Weak transcription	Fetal Intestine Small	intestine
9	chr15:45769400-45794800	Weak transcription	Ovary	ovary
10	chr15:45769400-45813000	Weak transcription	Fetal Intestine Large	intestine
11	chr15:45769800-45794600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
12	chr15:45771000-45813400	Weak transcription	Right Ventricle	heart
13	chr15:45771200-45814000	Weak transcription	Placenta	Placenta
14	chr15:45772000-45801600	Weak transcription	Skeletal Muscle Male	skeletal muscle
15	chr15:45772200-45791000	Weak transcription	HSMM	muscle
16	chr15:45773200-45814000	Weak transcription	Pancreas	Pancrea
17	chr15:45773400-45790600	Weak transcription	HSMMtube	muscle
18	chr15:45774600-45812800	Weak transcription	Fetal Brain Male	brain
19	chr15:45775600-45791800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
20	chr15:45775600-45812800	Weak transcription	Primary T cells fromperipheralblood	blood
21	chr15:45776000-45800400	Weak transcription	Esophagus	oesophagus
22	chr15:45778000-45813000	Weak transcription	Brain Germinal Matrix	brain
23	chr15:45778400-45801800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
24	chr15:45778400-45812600	Weak transcription	Primary T helper cells PMA-I stimulated	--
25	chr15:45778800-45806400	Weak transcription	Spleen	Spleen
26	chr15:45779400-45812800	Weak transcription	Fetal Brain Female	brain
27	chr15:45779800-45791400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
28	chr15:45779800-45799800	Weak transcription	Skeletal Muscle Female	skeletal muscle
29	chr15:45779800-45800200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
30	chr15:45780000-45800000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
31	chr15:45780000-45800000	Weak transcription	Liver	Liver
32	chr15:45780200-45791600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
33	chr15:45780200-45794600	Weak transcription	Brain Hippocampus Middle	brain
34	chr15:45780400-45794600	Weak transcription	Sigmoid Colon	Sigmoid Colon
35	chr15:45780400-45800200	Weak transcription	Colon Smooth Muscle	Colon
36	chr15:45781200-45800200	Weak transcription	Brain Substantia Nigra	brain
37	chr15:45781200-45801800	Weak transcription	Aorta	Aorta
38	chr15:45781600-45791000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
39	chr15:45781600-45797800	Weak transcription	Duodenum Smooth Muscle	Duodenum
40	chr15:45781800-45793600	Weak transcription	Rectal Mucosa Donor 29	rectum
41	chr15:45781800-45794600	Weak transcription	Fetal Muscle Leg	muscle
42	chr15:45781800-45798400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
43	chr15:45781800-45800000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
44	chr15:45781800-45800000	Weak transcription	Primary B cells from peripheral blood	blood
45	chr15:45781800-45800000	Weak transcription	Fetal Lung	lung
46	chr15:45781800-45800400	Weak transcription	Fetal Muscle Trunk	muscle
47	chr15:45781800-45801400	Weak transcription	Primary T cells from cord blood	blood
48	chr15:45781800-45801800	Weak transcription	Lung	lung
49	chr15:45781800-45802400	Weak transcription	Primary B cells from cord blood	blood
50	chr15:45782000-45797000	Weak transcription	Rectal Mucosa Donor 31	rectum

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