Variant report

Variant	rs62017245
Chromosome Location	chr15:50970420-50970421
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:50967277..50972737-chr15:50976604..50980349,6	K562	blood:
2	chr15:50970140..50972080-chr15:50972168..50973694,2	MCF-7	breast:
3	chr15:50966047..50970596-chr15:50977170..50981090,8	MCF-7	breast:
4	chr15:50966245..50970616-chr15:51167760..51171279,6	MCF-7	breast:
5	chr15:50967277..50971485-chr15:50976604..50981014,4	K562	blood:
6	chr15:50967892..50970576-chr15:51055981..51057918,2	K562	blood:
7	chr15:50967034..50970898-chr15:50976195..50981538,7	MCF-7	breast:

Variant related genes	Relation type
ENSG00000243027	Chromatin interaction
ENSG00000092439	Chromatin interaction
ENSG00000138600	Chromatin interaction

Extended variants
information (count: 66 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs10519279	0.81[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs10519283	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1060599	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11070803	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11070806	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11631085	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11632292	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11636894	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12438769	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12438850	0.81[EUR][1000 genomes]
rs12439783	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs17520350	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs17520448	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs17598264	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs17598819	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1966061	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2011049	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs3848127	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4775892	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs62017164	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs62017165	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs62017169	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs62017170	0.84[AFR][1000 genomes];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs62017171	0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs62017192	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs62017196	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs62017199	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs62017202	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs62017207	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62017208	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62017209	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62017211	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62017244	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs62019158	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs62021060	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs62021061	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs62021062	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs8028599	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs998831	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:27 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1045456	chr15:50592472-51019873	Strong transcription Weak transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Enhancers ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	121 gene(s)	inside rSNPs	diseases
2	nsv948579	chr15:50645530-51045564	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	119 gene(s)	inside rSNPs	diseases
3	nsv1053966	chr15:50715572-51133186	Flanking Active TSS Weak transcription Strong transcription Active TSS Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	65 gene(s)	inside rSNPs	diseases
4	nsv542383	chr15:50715572-51133186	Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	65 gene(s)	inside rSNPs	diseases
5	nsv1043805	chr15:50715572-51208891	Genic enhancers Enhancers Weak transcription Active TSS Strong transcription ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	82 gene(s)	inside rSNPs	diseases
6	nsv542384	chr15:50715572-51208891	Strong transcription Flanking Active TSS Weak transcription Enhancers Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	82 gene(s)	inside rSNPs	diseases
7	nsv1047443	chr15:50744781-51647023	Strong transcription Active TSS Weak transcription Genic enhancers Enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	82 gene(s)	inside rSNPs	diseases
8	nsv1051990	chr15:50745814-51133186	Enhancers Strong transcription Weak transcription Active TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
9	nsv1054970	chr15:50761410-51036625	Strong transcription Weak transcription ZNF genes & repeats Enhancers Active TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
10	nsv457134	chr15:50770868-51184583	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	54 gene(s)	inside rSNPs	diseases
11	nsv471242	chr15:50770868-51184583	Genic enhancers ZNF genes & repeats Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	54 gene(s)	inside rSNPs	diseases
12	nsv569396	chr15:50770868-51184583	Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	54 gene(s)	inside rSNPs	diseases
13	nsv457135	chr15:50770868-51189707	ZNF genes & repeats Enhancers Weak transcription Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	54 gene(s)	inside rSNPs	diseases
14	nsv569397	chr15:50770868-51189707	Strong transcription Active TSS Weak transcription Enhancers Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	54 gene(s)	inside rSNPs	diseases
15	nsv1048621	chr15:50775451-51115535	Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
16	nsv1047039	chr15:50782070-51187804	Enhancers Strong transcription Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	54 gene(s)	inside rSNPs	diseases
17	nsv542385	chr15:50782070-51187804	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	54 gene(s)	inside rSNPs	diseases
18	nsv457136	chr15:50789125-51294995	Strong transcription ZNF genes & repeats Weak transcription Active TSS Enhancers Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
19	nsv569398	chr15:50789125-51294995	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
20	nsv431389	chr15:50795835-50979738	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
21	nsv1036081	chr15:50818569-51097229	Strong transcription Active TSS Transcr. at gene 5' and 3' Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
22	nsv1055112	chr15:50822035-51133186	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
23	nsv1042372	chr15:50846461-51208891	Strong transcription Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	63 gene(s)	inside rSNPs	diseases
24	nsv542386	chr15:50846461-51208891	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	63 gene(s)	inside rSNPs	diseases
25	nsv569399	chr15:50874964-51562198	Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Strong transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	70 gene(s)	inside rSNPs	diseases
26	nsv569400	chr15:50874964-51767265	ZNF genes & repeats Weak transcription Strong transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	80 gene(s)	inside rSNPs	diseases
27	nsv1051400	chr15:50890333-51046283	Weak transcription Active TSS Enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:117 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:50906400-50977400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr15:50923400-50977600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr15:50923600-50977600	Weak transcription	Brain Substantia Nigra	brain
4	chr15:50935000-50975800	Weak transcription	Pancreas	Pancrea
5	chr15:50938800-50976200	Weak transcription	Gastric	stomach
6	chr15:50939400-50975400	Weak transcription	Brain Angular Gyrus	brain
7	chr15:50943400-50973600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
8	chr15:50943400-50975200	Weak transcription	Spleen	Spleen
9	chr15:50946200-50977200	Weak transcription	Rectal Smooth Muscle	rectum
10	chr15:50946800-50977600	Weak transcription	Brain Cingulate Gyrus	brain
11	chr15:50948800-50970600	Weak transcription	Aorta	Aorta
12	chr15:50948800-50975600	Weak transcription	Thymus	Thymus
13	chr15:50948800-50977200	Weak transcription	Brain Inferior Temporal Lobe	brain
14	chr15:50949000-50977800	Weak transcription	Placenta Amnion	Placenta Amnion
15	chr15:50949200-50977000	Weak transcription	Brain Anterior Caudate	brain
16	chr15:50949200-50977200	Weak transcription	Primary neutrophils fromperipheralblood	blood
17	chr15:50950000-50976200	Weak transcription	Fetal Brain Female	brain
18	chr15:50950000-50976800	Weak transcription	Brain Hippocampus Middle	brain
19	chr15:50950000-50976800	Weak transcription	Stomach Smooth Muscle	stomach
20	chr15:50950000-50977000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
21	chr15:50950000-50977000	Weak transcription	Skeletal Muscle Male	skeletal muscle
22	chr15:50950200-50977400	Weak transcription	Fetal Lung	lung
23	chr15:50950800-50977400	Weak transcription	Ovary	ovary
24	chr15:50951000-50976800	Weak transcription	Cortex derived primary cultured neurospheres	brain
25	chr15:50954400-50977200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
26	chr15:50954600-50975600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
27	chr15:50955000-50975600	Weak transcription	Duodenum Smooth Muscle	Duodenum
28	chr15:50955000-50975800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
29	chr15:50955600-50976600	Weak transcription	HUVEC	blood vessel
30	chr15:50956200-50975000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
31	chr15:50956200-50976800	Weak transcription	Primary hematopoietic stem cells	blood
32	chr15:50956200-50977000	Weak transcription	HUES48 Cell Line	embryonic stem cell
33	chr15:50956200-50977400	Weak transcription	Rectal Mucosa Donor 31	rectum
34	chr15:50957400-50977600	Weak transcription	Fetal Intestine Large	intestine
35	chr15:50959200-50976800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
36	chr15:50959400-50972600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
37	chr15:50959400-50975600	Weak transcription	Sigmoid Colon	Sigmoid Colon
38	chr15:50959600-50973800	Weak transcription	Fetal Muscle Trunk	muscle
39	chr15:50959800-50978000	Weak transcription	Esophagus	oesophagus
40	chr15:50960600-50976000	Weak transcription	Primary monocytes fromperipheralblood	blood
41	chr15:50961200-50977000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
42	chr15:50961600-50975400	Weak transcription	Duodenum Mucosa	Duodenum
43	chr15:50961800-50973400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
44	chr15:50961800-50973600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
45	chr15:50965000-50971400	Weak transcription	Fetal Stomach	stomach
46	chr15:50965200-50976000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
47	chr15:50966200-50976800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
48	chr15:50966400-50975200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
49	chr15:50966400-50976600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
50	chr15:50966600-50975200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links