Variant report

Variant	rs7166539
Chromosome Location	chr15:52780950-52780951
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:52779012..52781482-chr15:52782947..52786199,3	K562	blood:
2	chr15:52777384..52780171-chr15:52780757..52785344,4	MCF-7	breast:

Extended variants
information (count: 12 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs16964990	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16964993	0.96[AFR][1000 genomes]
rs28619344	1.00[EUR][1000 genomes]
rs7169582	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7180747	0.88[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs74013505	0.81[AFR][1000 genomes]
rs74015680	1.00[EUR][1000 genomes]
rs8038271	0.96[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv471245	chr15:52607262-53187165	Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
2	nsv1041421	chr15:52661342-53148286	Flanking Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
3	nsv1054899	chr15:52662365-52803756	Enhancers Genic enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
4	esv1832020	chr15:52702400-52901914	Enhancers Flanking Active TSS Weak transcription Genic enhancers Strong transcription Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:52772200-52781600	Weak transcription	Colonic Mucosa	Colon
2	chr15:52774600-52783800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
3	chr15:52774600-52802600	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr15:52774800-52783200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
5	chr15:52775200-52788400	Weak transcription	Primary B cells from cord blood	blood
6	chr15:52776000-52783800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
7	chr15:52776400-52789000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
8	chr15:52776400-52796200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
9	chr15:52776600-52783800	Enhancers	HUVEC	blood vessel
10	chr15:52776800-52788800	Weak transcription	Osteobl	bone
11	chr15:52777000-52783400	Weak transcription	NHDF-Ad	bronchial
12	chr15:52778000-52781200	Enhancers	Brain Substantia Nigra	brain
13	chr15:52778000-52781400	Enhancers	Brain Anterior Caudate	brain
14	chr15:52778000-52781800	Enhancers	Primary T regulatory cells fromperipheralblood	blood
15	chr15:52778400-52781600	Genic enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
16	chr15:52778400-52782600	Enhancers	Primary T helper cells fromperipheralblood	blood
17	chr15:52778600-52782000	Enhancers	Fetal Heart	heart
18	chr15:52778600-52783000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
19	chr15:52778600-52786200	Weak transcription	Adipose Nuclei	Adipose
20	chr15:52778600-52786200	Weak transcription	A549	lung
21	chr15:52778600-52788600	Weak transcription	Psoas Muscle	Psoas
22	chr15:52778600-52788800	Weak transcription	HSMMtube	muscle
23	chr15:52778600-52812400	Weak transcription	Right Ventricle	heart
24	chr15:52778800-52783800	Weak transcription	HSMM	muscle
25	chr15:52779000-52783000	Weak transcription	Muscle Satellite Cultured Cells	--
26	chr15:52779000-52783400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
27	chr15:52779200-52781000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
28	chr15:52779200-52782200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
29	chr15:52779200-52783000	Weak transcription	Lung	lung
30	chr15:52779200-52783600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
31	chr15:52779200-52783600	Weak transcription	Brain Inferior Temporal Lobe	brain
32	chr15:52779200-52791600	Weak transcription	Brain Cingulate Gyrus	brain
33	chr15:52779400-52782600	Enhancers	Primary T cells fromperipheralblood	blood
34	chr15:52779400-52783800	Weak transcription	Colon Smooth Muscle	Colon
35	chr15:52779800-52781200	Enhancers	HUES64 Cell Line	embryonic stem cell
36	chr15:52780000-52781000	Weak transcription	Fetal Muscle Trunk	muscle
37	chr15:52780000-52782400	Enhancers	Primary T helper cells PMA-I stimulated	--
38	chr15:52780000-52782600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
39	chr15:52780200-52781400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
40	chr15:52780200-52783000	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
41	chr15:52780200-52784600	Weak transcription	Right Atrium	heart
42	chr15:52780200-52788400	Weak transcription	Left Ventricle	heart
43	chr15:52780200-52791800	Weak transcription	Brain Angular Gyrus	brain
44	chr15:52780400-52782000	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
45	chr15:52780400-52783000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
46	chr15:52780600-52781000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
47	chr15:52780600-52781000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
48	chr15:52780600-52781200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
49	chr15:52780600-52781400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
50	chr15:52780600-52782200	Enhancers	Primary T cells from cord blood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links