Variant report

Variant	rs2623996
Chromosome Location	chr15:73530423-73530424
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:73523932..73526335-chr15:73528553..73530917,2	K562	blood:
2	chr15:73529028..73531233-chr15:73536752..73538300,2	MCF-7	breast:
3	chr15:73530199..73532028-chr15:73536328..73538305,2	MCF-7	breast:
4	chr15:73529298..73531407-chr15:73531579..73534636,3	K562	blood:

Extended variants
information (count: 75 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:73)

rs_ID	r²[population]
rs1017809	1.00[CEU][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1029	1.00[CEU][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1038136	0.85[EUR][1000 genomes]
rs11852881	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs11853109	1.00[CEU][hapmap];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11856383	0.88[EUR][1000 genomes]
rs11856433	0.88[EUR][1000 genomes]
rs11856466	0.88[EUR][1000 genomes]
rs11857053	0.88[EUR][1000 genomes]
rs12101540	0.88[EUR][1000 genomes]
rs12101734	0.88[EUR][1000 genomes]
rs13329282	0.88[EUR][1000 genomes]
rs1382780	1.00[CEU][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1648248	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1678245	1.00[CEU][hapmap];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16957661	0.85[EUR][1000 genomes]
rs1714529	1.00[CEU][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1714530	1.00[CEU][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1714532	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1812363	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1842164	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1895842	1.00[CEU][hapmap];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1963253	0.81[EUR][1000 genomes]
rs1963254	0.80[EUR][1000 genomes]
rs1979410	1.00[CEU][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2169952	0.88[EUR][1000 genomes]
rs2254390	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2254818	1.00[CEU][hapmap];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2619259	0.83[EUR][1000 genomes]
rs2623990	1.00[CEU][hapmap];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2623994	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2624002	1.00[CEU][hapmap];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2660823	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2680347	1.00[CEU][hapmap];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2680348	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2680350	1.00[CEU][hapmap];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2680351	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28547177	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28572029	0.85[EUR][1000 genomes]
rs28582318	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28676873	0.88[EUR][1000 genomes]
rs28808999	0.88[EUR][1000 genomes]
rs28828370	0.88[EUR][1000 genomes]
rs4238459	0.88[EUR][1000 genomes]
rs4287530	0.88[EUR][1000 genomes]
rs4325518	0.88[EUR][1000 genomes]
rs4539561	0.85[EUR][1000 genomes]
rs4635304	0.88[EUR][1000 genomes]
rs4776626	0.88[EUR][1000 genomes]
rs4777584	0.88[EUR][1000 genomes]
rs490567	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs492448	0.88[AMR][1000 genomes]
rs514632	0.88[AMR][1000 genomes]
rs524457	1.00[CEU][hapmap];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs533460	1.00[CEU][hapmap];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs550212	0.88[AMR][1000 genomes]
rs55969660	0.88[EUR][1000 genomes]
rs57453823	0.88[EUR][1000 genomes]
rs576414	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6495054	0.88[EUR][1000 genomes]
rs7176908	1.00[CEU][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7180017	0.88[EUR][1000 genomes]
rs73438015	0.83[EUR][1000 genomes]
rs7403367	0.88[EUR][1000 genomes]
rs7497831	0.88[EUR][1000 genomes]
rs8031718	0.88[EUR][1000 genomes]
rs8034243	0.85[EUR][1000 genomes]
rs8035717	1.00[CEU][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8038411	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs899480	1.00[CEU][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9920152	1.00[CEU][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9920459	1.00[CEU][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9920675	1.00[CEU][hapmap];0.83[AMR][1000 genomes];1.00[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	nsv525462	chr15:73349633-73563495	Genic enhancers Weak transcription Enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	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:70 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:73497800-73541800	Weak transcription	Fetal Kidney	kidney
2	chr15:73518200-73540800	Weak transcription	Colonic Mucosa	Colon
3	chr15:73518400-73531800	Weak transcription	Aorta	Aorta
4	chr15:73518600-73534000	Weak transcription	Right Ventricle	heart
5	chr15:73518800-73546200	Weak transcription	Psoas Muscle	Psoas
6	chr15:73518800-73547800	Weak transcription	Left Ventricle	heart
7	chr15:73520400-73562400	Weak transcription	H9 Cell Line	embryonic stem cell
8	chr15:73520600-73579600	Weak transcription	Colon Smooth Muscle	Colon
9	chr15:73520800-73536400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
10	chr15:73523000-73572200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
11	chr15:73523200-73547800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
12	chr15:73524200-73536600	Weak transcription	Skeletal Muscle Female	skeletal muscle
13	chr15:73524200-73546200	Weak transcription	Esophagus	oesophagus
14	chr15:73524200-73547000	Weak transcription	Ovary	ovary
15	chr15:73524400-73531400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
16	chr15:73524400-73542200	Weak transcription	HUES48 Cell Line	embryonic stem cell
17	chr15:73524800-73538400	Weak transcription	H1 Cell Line	embryonic stem cell
18	chr15:73525000-73548800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
19	chr15:73525200-73530600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
20	chr15:73525200-73546200	Weak transcription	Fetal Muscle Leg	muscle
21	chr15:73525200-73547000	Weak transcription	Pancreas	Pancrea
22	chr15:73525400-73532000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
23	chr15:73525600-73547800	Weak transcription	Gastric	stomach
24	chr15:73526400-73530800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr15:73526400-73531800	Weak transcription	Fetal Brain Female	brain
26	chr15:73526600-73541400	Weak transcription	HUES6 Cell Line	embryonic stem cell
27	chr15:73527000-73531800	Weak transcription	Fetal Brain Male	brain
28	chr15:73527000-73536600	Weak transcription	Brain Inferior Temporal Lobe	brain
29	chr15:73527000-73547000	Weak transcription	Brain Angular Gyrus	brain
30	chr15:73527000-73579400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
31	chr15:73527400-73542000	Weak transcription	Brain Germinal Matrix	brain
32	chr15:73527400-73551600	Weak transcription	Small Intestine	intestine
33	chr15:73527600-73538400	Weak transcription	Brain Cingulate Gyrus	brain
34	chr15:73527600-73562400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
35	chr15:73528000-73530800	Strong transcription	Rectal Mucosa Donor 31	rectum
36	chr15:73528200-73538000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
37	chr15:73528600-73530600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
38	chr15:73528600-73530800	Strong transcription	Fetal Intestine Large	intestine
39	chr15:73528800-73547000	Weak transcription	Lung	lung
40	chr15:73529000-73538600	Weak transcription	Sigmoid Colon	Sigmoid Colon
41	chr15:73529000-73552600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
42	chr15:73529400-73531200	Weak transcription	Fetal Intestine Small	intestine
43	chr15:73529400-73531200	Weak transcription	Fetal Stomach	stomach
44	chr15:73529400-73536400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
45	chr15:73529400-73547000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
46	chr15:73529600-73530600	Enhancers	Brain Substantia Nigra	brain
47	chr15:73529600-73530600	Genic enhancers	Fetal Lung	lung
48	chr15:73529600-73531200	Weak transcription	Fetal Muscle Trunk	muscle
49	chr15:73529600-73546000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
50	chr15:73529800-73530800	Enhancers	Liver	Liver

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links