Variant report

Variant	rs13379492
Chromosome Location	chr15:62184636-62184637
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:62170697..62173317-chr15:62182241..62184749,2	MCF-7	breast:

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

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs10519157	0.83[ASN][1000 genomes]
rs11071642	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11632425	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11634163	0.90[ASN][1000 genomes]
rs11635980	0.81[ASN][1000 genomes]
rs12437684	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12440524	0.81[ASN][1000 genomes]
rs12898423	0.81[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs12906423	0.89[EUR][1000 genomes]
rs12908081	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12908472	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12911564	0.89[EUR][1000 genomes]
rs12915295	0.91[EUR][1000 genomes]
rs12915825	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12916268	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs13379947	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1425270	0.84[EUR][1000 genomes]
rs17271193	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17271305	0.90[ASN][1000 genomes]
rs1981916	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1981917	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2414753	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2414755	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs28373613	0.80[EUR][1000 genomes]
rs28411984	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28513564	0.90[AMR][1000 genomes];0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34965045	0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs35967150	0.91[ASN][1000 genomes]
rs3743297	0.91[EUR][1000 genomes]
rs3784634	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4283171	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4587915	0.85[EUR][1000 genomes]
rs4774427	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4775453	0.90[EUR][1000 genomes]
rs5006593	0.84[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs62008532	0.81[ASN][1000 genomes]
rs7172967	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7177173	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7179506	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs8027751	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs8032681	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs8034216	0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs8034335	0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs8034914	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs8039105	0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:18 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv904284	chr15:62123600-62243197	Weak transcription Enhancers Strong transcription Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
2	nsv521334	chr15:62129809-62340126	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
3	nsv527451	chr15:62129809-62340126	Weak transcription Strong transcription Genic enhancers Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
4	nsv904285	chr15:62146598-62246864	Weak transcription Strong transcription Active TSS ZNF genes & repeats Enhancers Genic enhancers Flanking Active TSS	TF binding region Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
5	nsv904286	chr15:62146598-62313373	Strong transcription Weak transcription ZNF genes & repeats Genic enhancers Enhancers Active TSS Flanking Active TSS	TF binding region Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
6	nsv904287	chr15:62146598-62338797	Weak transcription Strong transcription Enhancers Active TSS ZNF genes & repeats Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
7	nsv904288	chr15:62146598-62356386	Weak transcription Strong transcription ZNF genes & repeats Enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
8	nsv569641	chr15:62155282-62287456	Strong transcription Weak transcription ZNF genes & repeats Genic enhancers Enhancers Flanking Active TSS	TF binding region Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
9	nsv904289	chr15:62156690-62287456	Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Enhancers Flanking Active TSS	TF binding region Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
10	nsv516639	chr15:62175134-62340126	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
11	nsv904290	chr15:62175134-62356386	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
12	nsv569642	chr15:62178695-62243197	Weak transcription Strong transcription ZNF genes & repeats Enhancers Genic enhancers Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
13	nsv904291	chr15:62178695-62287456	Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Enhancers Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
14	nsv904292	chr15:62178695-62313373	Strong transcription Weak transcription ZNF genes & repeats Genic enhancers Enhancers Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
15	nsv904293	chr15:62178695-62338797	Strong transcription Flanking Active TSS Weak transcription Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS	TF binding region Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
16	nsv904294	chr15:62178695-62356386	Weak transcription Strong transcription Flanking Bivalent TSS/Enh Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
17	nsv457176	chr15:62178695-62519658	Strong transcription Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Enhancers Bivalent Enhancer Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
18	nsv569643	chr15:62178695-62519658	Enhancers Weak transcription Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS 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:101 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:62139800-62185200	Weak transcription	NHLF	lung
2	chr15:62140000-62184800	Weak transcription	Right Ventricle	heart
3	chr15:62142000-62209400	Weak transcription	Colonic Mucosa	Colon
4	chr15:62142400-62253000	Weak transcription	Spleen	Spleen
5	chr15:62142600-62209200	Weak transcription	K562	blood
6	chr15:62143800-62235600	Weak transcription	Fetal Brain Male	brain
7	chr15:62144000-62194600	Weak transcription	Fetal Lung	lung
8	chr15:62146800-62230000	Weak transcription	Pancreas	Pancrea
9	chr15:62149000-62198000	Weak transcription	Fetal Kidney	kidney
10	chr15:62150000-62276200	Weak transcription	Psoas Muscle	Psoas
11	chr15:62150200-62185400	Weak transcription	Fetal Heart	heart
12	chr15:62153200-62185400	Strong transcription	Primary monocytes fromperipheralblood	blood
13	chr15:62153800-62185000	Strong transcription	Monocytes-CD14+_RO01746	blood
14	chr15:62154200-62198200	Weak transcription	NH-A	brain
15	chr15:62162600-62195200	Weak transcription	Fetal Stomach	stomach
16	chr15:62163000-62184800	Weak transcription	Fetal Muscle Trunk	muscle
17	chr15:62163000-62198400	Weak transcription	Osteobl	bone
18	chr15:62163600-62184800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
19	chr15:62163800-62185400	Weak transcription	Muscle Satellite Cultured Cells	--
20	chr15:62165400-62185000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr15:62165600-62185400	Weak transcription	Gastric	stomach
22	chr15:62165600-62198400	Weak transcription	Thymus	Thymus
23	chr15:62172600-62184800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
24	chr15:62172600-62185200	Weak transcription	HepG2	liver
25	chr15:62173400-62198200	Weak transcription	Left Ventricle	heart
26	chr15:62179400-62185200	Strong transcription	Duodenum Smooth Muscle	Duodenum
27	chr15:62180200-62184800	Strong transcription	Primary T helper cells PMA-I stimulated	--
28	chr15:62180200-62184800	Strong transcription	Rectal Mucosa Donor 29	rectum
29	chr15:62180200-62185200	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
30	chr15:62180200-62185200	Strong transcription	Primary T helper cells fromperipheralblood	blood
31	chr15:62180200-62185800	Strong transcription	Duodenum Mucosa	Duodenum
32	chr15:62180400-62185000	Strong transcription	Primary T cells fromperipheralblood	blood
33	chr15:62180400-62185200	Strong transcription	Dnd41	blood
34	chr15:62180800-62185800	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
35	chr15:62181600-62185400	Strong transcription	Liver	Liver
36	chr15:62181800-62186000	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
37	chr15:62181800-62198800	Weak transcription	Placenta Amnion	Placenta Amnion
38	chr15:62182600-62184800	Weak transcription	Small Intestine	intestine
39	chr15:62182600-62184800	Weak transcription	NHDF-Ad	bronchial
40	chr15:62182600-62185000	Weak transcription	Brain Substantia Nigra	brain
41	chr15:62182600-62185200	Weak transcription	Stomach Smooth Muscle	stomach
42	chr15:62182600-62185200	Weak transcription	HSMMtube	muscle
43	chr15:62182600-62185400	Weak transcription	Skeletal Muscle Male	skeletal muscle
44	chr15:62182600-62197200	Weak transcription	HSMM	muscle
45	chr15:62182600-62198400	Weak transcription	Fetal Thymus	thymus
46	chr15:62182800-62185000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
47	chr15:62183000-62185200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
48	chr15:62183000-62185200	Weak transcription	Brain Cingulate Gyrus	brain
49	chr15:62183000-62198200	Weak transcription	HUVEC	blood vessel
50	chr15:62183600-62184800	Weak transcription	Rectal Mucosa Donor 31	rectum

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