Variant report

Variant	rs3743489
Chromosome Location	chr15:73567326-73567327
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:73076070..73077701-chr15:73565950..73567459,2	MCF-7	breast:
2	chr15:73074324..73076119-chr15:73565869..73567501,2	K562	blood:
3	chr15:73567230..73569209-chr15:73616607..73619389,2	K562	blood:
4	chr15:73564553..73567490-chr15:73568000..73569621,2	K562	blood:

Variant related genes	Relation type
ENSG00000260898	Chromatin interaction
ENSG00000159322	Chromatin interaction

Extended variants
information (count: 66 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:65)

rs_ID	r²[population]
rs10048053	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1023924	0.87[CHB][hapmap]
rs1038137	0.88[CHB][hapmap]
rs10438294	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.87[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10467948	0.88[CHB][hapmap]
rs10467949	0.87[YRI][hapmap]
rs11072406	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11072409	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1131854	0.91[CEU][hapmap];0.88[CHB][hapmap];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11633469	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11636241	0.92[CEU][hapmap];0.89[CHB][hapmap];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11639213	0.92[CEU][hapmap];0.89[CHB][hapmap];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12050774	0.87[CHB][hapmap]
rs12050848	0.91[CEU][hapmap];0.88[CHB][hapmap];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12708506	0.92[CEU][hapmap];0.89[CHB][hapmap];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12899246	0.89[CHB][hapmap]
rs12902768	1.00[CEU][hapmap];0.94[CHB][hapmap];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12907139	0.92[CEU][hapmap];0.81[CHB][hapmap];0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1479337	0.86[CHB][hapmap]
rs1479338	0.81[CEU][hapmap];0.82[CHB][hapmap]
rs1479339	0.82[CHB][hapmap]
rs17762600	0.87[CHB][hapmap]
rs17829830	0.87[CHB][hapmap]
rs17829957	0.87[CHB][hapmap]
rs1812835	0.84[CEU][hapmap]
rs1871385	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2046017	0.91[CEU][hapmap];0.88[CHB][hapmap];0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2169951	0.88[CHB][hapmap]
rs2194924	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2251205	0.87[CEU][hapmap];0.88[CHB][hapmap];0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2415147	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2415148	0.88[CHB][hapmap];0.82[ASN][1000 genomes]
rs34013312	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs35450875	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3736510	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3784793	0.94[CEU][hapmap];0.91[CHB][hapmap];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs3784796	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs3784801	0.81[CHB][hapmap]
rs4381562	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4776630	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4777589	0.88[CHB][hapmap]
rs4777590	0.87[CHB][hapmap]
rs4777591	0.82[CHB][hapmap]
rs56157337	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs62015500	0.95[ASN][1000 genomes]
rs62015502	0.82[ASN][1000 genomes]
rs62017779	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs6495047	0.81[CHB][hapmap]
rs7164894	0.89[CHB][hapmap]
rs7175329	0.88[CHB][hapmap]
rs747872	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs747873	0.96[CEU][hapmap];1.00[CHB][hapmap];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs8024575	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs8026121	0.82[CHB][hapmap]
rs8026579	0.89[CHB][hapmap]
rs8027588	0.91[CEU][hapmap];0.88[CHB][hapmap];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs8029106	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs8035063	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs8035925	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs8040516	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8042700	1.00[CEU][hapmap];0.94[CHB][hapmap];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs922516	0.88[CHB][hapmap]
rs9672588	0.91[CEU][hapmap];0.88[CHB][hapmap];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9920186	0.88[CHB][hapmap]
rs9972523	0.89[AMR][1000 genomes];0.90[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	nsv904343	chr15:73396760-73775043	Strong transcription Bivalent Enhancer Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription Genic enhancers Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:87 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:73520600-73579600	Weak transcription	Colon Smooth Muscle	Colon
2	chr15:73523000-73572200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
3	chr15:73527000-73579400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr15:73535200-73588000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr15:73536200-73602000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
6	chr15:73537600-73572200	Weak transcription	Fetal Heart	heart
7	chr15:73538000-73593400	Weak transcription	Placenta Amnion	Placenta Amnion
8	chr15:73540000-73584800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
9	chr15:73543000-73567400	Strong transcription	Rectal Mucosa Donor 29	rectum
10	chr15:73544400-73583000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr15:73546800-73583000	Weak transcription	Primary T helper cells PMA-I stimulated	--
12	chr15:73546800-73588600	Weak transcription	Spleen	Spleen
13	chr15:73547600-73576600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
14	chr15:73547800-73584600	Weak transcription	Pancreatic Islets	Pancreatic Islet
15	chr15:73548200-73575000	Weak transcription	Gastric	stomach
16	chr15:73548200-73575200	Weak transcription	Pancreas	Pancrea
17	chr15:73548200-73575600	Weak transcription	Esophagus	oesophagus
18	chr15:73549200-73575200	Weak transcription	Brain Germinal Matrix	brain
19	chr15:73549200-73575200	Weak transcription	Lung	lung
20	chr15:73550800-73581400	Weak transcription	HMEC	breast
21	chr15:73552000-73577800	Weak transcription	Psoas Muscle	Psoas
22	chr15:73552400-73588200	Weak transcription	Hela-S3	cervix
23	chr15:73552800-73598400	Weak transcription	Small Intestine	intestine
24	chr15:73553800-73581200	Weak transcription	Primary T cells fromperipheralblood	blood
25	chr15:73555000-73570600	Weak transcription	Liver	Liver
26	chr15:73555200-73575600	Weak transcription	Colonic Mucosa	Colon
27	chr15:73557800-73567800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr15:73560800-73597200	Strong transcription	Rectal Mucosa Donor 31	rectum
29	chr15:73561600-73570400	Weak transcription	Left Ventricle	heart
30	chr15:73562800-73568000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
31	chr15:73562800-73583000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
32	chr15:73563000-73568200	Weak transcription	HSMMtube	muscle
33	chr15:73563000-73570800	Weak transcription	Stomach Smooth Muscle	stomach
34	chr15:73563000-73574600	Weak transcription	H9 Cell Line	embryonic stem cell
35	chr15:73563200-73568600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
36	chr15:73563200-73570200	Weak transcription	Fetal Kidney	kidney
37	chr15:73563200-73578000	Weak transcription	Aorta	Aorta
38	chr15:73563200-73578800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
39	chr15:73563200-73598600	Weak transcription	Stomach Mucosa	stomach
40	chr15:73563400-73570400	Weak transcription	Cortex derived primary cultured neurospheres	brain
41	chr15:73563400-73574200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
42	chr15:73563400-73575000	Weak transcription	H1 Cell Line	embryonic stem cell
43	chr15:73563400-73575000	Weak transcription	Fetal Muscle Trunk	muscle
44	chr15:73563400-73575200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
45	chr15:73563400-73575400	Weak transcription	Adipose Nuclei	Adipose
46	chr15:73563400-73575600	Weak transcription	Right Ventricle	heart
47	chr15:73563400-73581000	Weak transcription	Fetal Brain Male	brain
48	chr15:73563400-73581200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
49	chr15:73563400-73585600	Strong transcription	Fetal Intestine Large	intestine
50	chr15:73563600-73570400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell

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