Variant report

Variant	rs16953082
Chromosome Location	chr15:52102256-52102257
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:52100222..52103696-chr15:52103888..52107125,3	MCF-7	breast:
2	chr15:52099817..52103659-chr15:52120631..52123209,5	MCF-7	breast:
3	chr15:52100848..52103641-chr15:52104210..52107534,4	K562	blood:
4	chr15:52100912..52103641-chr15:52104317..52106256,2	K562	blood:

Variant related genes	Relation type
ENSG00000138594	Chromatin interaction

Extended variants
information (count: 47 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs16964486	1.00[CEU][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes]
rs16964488	1.00[CEU][hapmap]
rs16964505	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.95[EUR][1000 genomes]
rs16964506	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];0.82[JPT][hapmap];1.00[LWK][hapmap];0.95[EUR][1000 genomes]
rs16964507	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];0.95[EUR][1000 genomes]
rs16964508	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];0.82[JPT][hapmap];1.00[LWK][hapmap];0.95[EUR][1000 genomes]
rs16964510	0.95[EUR][1000 genomes]
rs16964518	0.95[EUR][1000 genomes]
rs16964528	1.00[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs16964532	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16964555	1.00[CEU][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16964561	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16964579	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16964585	1.00[CEU][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16964596	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16964639	1.00[AFR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16964645	1.00[AFR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17705373	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs1991267	1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs2258248	1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs2414115	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs2570232	1.00[CEU][hapmap];1.00[GIH][hapmap];0.89[EUR][1000 genomes]
rs2570265	0.90[ASN][1000 genomes]
rs2593181	1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs2593184	0.90[ASN][1000 genomes]
rs2623256	0.89[EUR][1000 genomes]
rs2623291	0.90[ASN][1000 genomes]
rs2899478	1.00[CEU][hapmap];1.00[JPT][hapmap]
rs2959296	1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs3751595	1.00[CEU][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes]
rs3794529	0.88[EUR][1000 genomes]
rs4775971	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs56221158	0.93[EUR][1000 genomes]
rs7165299	1.00[LWK][hapmap]
rs7165594	1.00[CEU][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes]
rs7166954	0.81[EUR][1000 genomes]
rs7167759	1.00[CEU][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes]
rs7174616	1.00[CEU][hapmap]
rs7175121	1.00[CEU][hapmap]
rs7179971	0.81[EUR][1000 genomes]
rs7180093	0.81[EUR][1000 genomes]
rs7342575	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs74015757	0.86[EUR][1000 genomes]
rs74015761	0.86[EUR][1000 genomes]
rs8036648	0.90[EUR][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	nsv569409	chr15:52028914-52268144	Strong transcription Weak transcription Flanking Active TSS Enhancers Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
2	esv3361968	chr15:52087428-52107237	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	Chromatin interactive region miRNA target site	2 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:78 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:52052600-52106600	Weak transcription	HSMM	muscle
2	chr15:52060200-52103400	Weak transcription	Rectal Mucosa Donor 31	rectum
3	chr15:52060800-52102600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
4	chr15:52060800-52105400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
5	chr15:52061600-52112000	Weak transcription	NHLF	lung
6	chr15:52074800-52102800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
7	chr15:52076800-52104400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
8	chr15:52080800-52102600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
9	chr15:52085800-52105200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
10	chr15:52085800-52108800	Weak transcription	Pancreatic Islets	Pancreatic Islet
11	chr15:52089000-52106400	Weak transcription	HSMMtube	muscle
12	chr15:52089200-52107200	Strong transcription	Monocytes-CD14+_RO01746	blood
13	chr15:52090400-52104400	Strong transcription	Primary monocytes fromperipheralblood	blood
14	chr15:52091200-52104600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
15	chr15:52091200-52109400	Weak transcription	Gastric	stomach
16	chr15:52091400-52103600	Weak transcription	Rectal Mucosa Donor 29	rectum
17	chr15:52091800-52108200	Weak transcription	Sigmoid Colon	Sigmoid Colon
18	chr15:52092000-52107800	Weak transcription	Fetal Muscle Leg	muscle
19	chr15:52093600-52105200	Weak transcription	HUES48 Cell Line	embryonic stem cell
20	chr15:52093800-52108600	Weak transcription	Fetal Lung	lung
21	chr15:52096000-52104800	Weak transcription	Placenta	Placenta
22	chr15:52097200-52103000	Strong transcription	Primary T helper cells fromperipheralblood	blood
23	chr15:52098400-52104000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
24	chr15:52098400-52104400	Strong transcription	Brain Anterior Caudate	brain
25	chr15:52098400-52104400	Strong transcription	Brain Cingulate Gyrus	brain
26	chr15:52098400-52106800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
27	chr15:52098600-52102400	Strong transcription	Adipose Nuclei	Adipose
28	chr15:52098800-52108800	Weak transcription	Primary neutrophils fromperipheralblood	blood
29	chr15:52099000-52103000	Strong transcription	Colon Smooth Muscle	Colon
30	chr15:52099200-52107400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
31	chr15:52099200-52108800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
32	chr15:52099400-52107200	Weak transcription	Primary T helper cells PMA-I stimulated	--
33	chr15:52099600-52108600	Weak transcription	Primary B cells from peripheral blood	blood
34	chr15:52099600-52108800	Weak transcription	Duodenum Mucosa	Duodenum
35	chr15:52099800-52103600	Weak transcription	Ovary	ovary
36	chr15:52099800-52108400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
37	chr15:52099800-52109000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
38	chr15:52099800-52109400	Weak transcription	Spleen	Spleen
39	chr15:52099800-52110000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
40	chr15:52099800-52110400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
41	chr15:52099800-52110400	Weak transcription	Left Ventricle	heart
42	chr15:52099800-52113800	Weak transcription	Aorta	Aorta
43	chr15:52100000-52103600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
44	chr15:52100000-52103600	Weak transcription	Rectal Smooth Muscle	rectum
45	chr15:52100000-52104400	Weak transcription	Fetal Muscle Trunk	muscle
46	chr15:52100000-52106200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
47	chr15:52100000-52109400	Weak transcription	Esophagus	oesophagus
48	chr15:52100000-52109400	Weak transcription	Fetal Stomach	stomach
49	chr15:52100000-52109400	Weak transcription	Lung	lung
50	chr15:52100000-52110200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin

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