Variant report

Variant	rs2118159
Chromosome Location	chr15:34458449-34458450
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs10152261	0.88[ASN][1000 genomes]
rs11852315	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11853345	0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11853347	0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11854298	0.82[ASN][1000 genomes]
rs11856753	0.83[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs11857604	0.82[ASN][1000 genomes]
rs11857608	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11858527	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17236749	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17554484	0.88[ASN][1000 genomes]
rs17817770	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2118160	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28406544	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3764236	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3829483	0.88[ASN][1000 genomes]
rs41405647	0.88[ASN][1000 genomes]
rs4486849	0.88[ASN][1000 genomes]
rs4581678	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55801303	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6495624	0.88[ASN][1000 genomes]
rs7161944	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7168139	0.82[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7176526	0.82[ASN][1000 genomes]
rs7179249	0.82[ASN][1000 genomes]
rs7183568	0.82[ASN][1000 genomes]
rs73382081	0.82[ASN][1000 genomes]
rs73382086	0.82[ASN][1000 genomes]
rs73384011	0.88[ASN][1000 genomes]
rs7497666	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs8037674	0.88[ASN][1000 genomes]
rs9672345	0.82[ASN][1000 genomes]
rs9672434	0.82[ASN][1000 genomes]
rs9672496	0.82[ASN][1000 genomes]
rs9806468	0.82[ASN][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	nsv1035579	chr15:34363159-34501115	Strong transcription Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
2	esv3507159	chr15:34456709-34485891	Enhancers Strong transcription Weak transcription ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS	Chromatin interactive region	3 gene(s)	inside rSNPs	n/a
3	esv3507160	chr15:34456709-34485891	ZNF genes & repeats Enhancers Weak transcription Strong transcription Active TSS Genic enhancers Flanking Active TSS	Chromatin interactive region	3 gene(s)	inside rSNPs	n/a

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:34445400-34459600	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
2	chr15:34445800-34459400	ZNF genes & repeats	Primary hematopoietic stem cells	blood
3	chr15:34453600-34461000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
4	chr15:34453600-34474600	Weak transcription	Colon Smooth Muscle	Colon
5	chr15:34454000-34477400	Weak transcription	HSMM	muscle
6	chr15:34454200-34497800	Weak transcription	Osteobl	bone
7	chr15:34454600-34501200	Weak transcription	Colonic Mucosa	Colon
8	chr15:34454800-34465600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
9	chr15:34454800-34501000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
10	chr15:34455000-34458800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr15:34455000-34459600	Weak transcription	Primary T cells fromperipheralblood	blood
12	chr15:34455000-34460600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
13	chr15:34455000-34460800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
14	chr15:34455000-34461400	Weak transcription	Primary T cells from cord blood	blood
15	chr15:34455000-34463400	Weak transcription	Rectal Mucosa Donor 29	rectum
16	chr15:34455200-34458600	Weak transcription	Cortex derived primary cultured neurospheres	brain
17	chr15:34455200-34458600	Weak transcription	Fetal Thymus	thymus
18	chr15:34455200-34458800	Weak transcription	HUVEC	blood vessel
19	chr15:34455200-34459000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
20	chr15:34455200-34459200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
21	chr15:34455200-34459800	Weak transcription	Sigmoid Colon	Sigmoid Colon
22	chr15:34455200-34460400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
23	chr15:34455200-34460600	Weak transcription	Fetal Muscle Leg	muscle
24	chr15:34455200-34464400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
25	chr15:34455200-34464600	Weak transcription	Ovary	ovary
26	chr15:34455200-34464600	Weak transcription	Thymus	Thymus
27	chr15:34455600-34463600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
28	chr15:34457800-34458800	Genic enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
29	chr15:34457800-34459000	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
30	chr15:34458000-34458600	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
31	chr15:34458200-34458600	ZNF genes & repeats	Foreskin Keratinocyte Primary Cells skin03	Skin
32	chr15:34458200-34458600	Enhancers	Placenta	Placenta
33	chr15:34458200-34458600	Enhancers	Gastric	stomach
34	chr15:34458200-34458600	Enhancers	Right Ventricle	heart
35	chr15:34458200-34458600	ZNF genes & repeats	A549	lung
36	chr15:34458200-34458800	Enhancers	Esophagus	oesophagus
37	chr15:34458200-34458800	ZNF genes & repeats	Fetal Stomach	stomach
38	chr15:34458200-34459000	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
39	chr15:34458200-34459000	ZNF genes & repeats	Fetal Intestine Small	intestine
40	chr15:34458400-34458600	Enhancers	iPS-18 Cell Line	embryonic stem cell
41	chr15:34458400-34458600	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
42	chr15:34458400-34458600	Enhancers	Primary T helper cells PMA-I stimulated	--
43	chr15:34458400-34458600	Genic enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
44	chr15:34458400-34458600	Enhancers	Fetal Muscle Trunk	muscle
45	chr15:34458400-34458600	Enhancers	Left Ventricle	heart
46	chr15:34458400-34458600	Enhancers	Lung	lung
47	chr15:34458400-34458600	Enhancers	Psoas Muscle	Psoas
48	chr15:34458400-34458600	Enhancers	HepG2	liver
49	chr15:34458400-34458600	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
50	chr15:34458400-34458800	Enhancers	H1 Cell Line	embryonic stem cell

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