Variant report

Variant	rs2663531
Chromosome Location	chr15:51204749-51204750
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:51202456..51205148-chr15:51207377..51210449,3	MCF-7	breast:
2	chr15:51201141..51202699-chr15:51202955..51205782,2	K562	blood:
3	chr15:51201141..51203041-chr15:51203150..51205782,2	K562	blood:
4	chr15:51199131..51202323-chr15:51202549..51205945,5	MCF-7	breast:

Variant related genes	Relation type
ENSG00000081014	Chromatin interaction

Extended variants
information (count: 106 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:91)

rs_ID	r²[population]
rs10851493	0.81[ASN][1000 genomes]
rs11070822	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11070832	0.81[ASN][1000 genomes]
rs1124769	0.83[ASN][1000 genomes]
rs1135397	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1147132	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1147134	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1147137	0.93[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1147138	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1147140	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12050528	1.00[AFR][1000 genomes]
rs12440387	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12440745	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12442459	0.81[ASN][1000 genomes]
rs12591438	0.97[AFR][1000 genomes];0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12591500	0.81[ASN][1000 genomes]
rs12593342	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12593764	0.81[ASN][1000 genomes]
rs12593765	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12593778	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12593829	0.81[ASN][1000 genomes]
rs12595526	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1276855	0.81[ASN][1000 genomes]
rs1276856	0.83[ASN][1000 genomes]
rs12900777	0.81[ASN][1000 genomes]
rs1290084	0.81[ASN][1000 genomes]
rs12902649	0.90[AFR][1000 genomes];0.80[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs12904435	0.95[AFR][1000 genomes]
rs12909470	0.82[ASN][1000 genomes]
rs12909760	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12909839	0.95[AFR][1000 genomes];0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12912106	0.81[ASN][1000 genomes]
rs12914185	0.81[ASN][1000 genomes]
rs12916845	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12917492	0.81[ASN][1000 genomes]
rs1318765	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17646461	0.89[ASN][1000 genomes]
rs17646917	0.95[AFR][1000 genomes];0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17647040	0.82[ASN][1000 genomes]
rs17702978	0.83[ASN][1000 genomes]
rs17703435	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs17703518	0.82[ASN][1000 genomes]
rs1871460	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1876784	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1904430	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1955	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2289304	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2291107	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2574754	1.00[AFR][1000 genomes]
rs2574756	0.81[ASN][1000 genomes]
rs2614762	1.00[AFR][1000 genomes]
rs2614768	0.83[ASN][1000 genomes]
rs2614771	0.82[ASN][1000 genomes]
rs2614774	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2614775	0.81[ASN][1000 genomes]
rs2614787	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2614788	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2614793	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2619689	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2619690	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2619692	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2619695	0.89[ASN][1000 genomes]
rs2619696	0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2663528	0.81[ASN][1000 genomes]
rs2663530	1.00[AFR][1000 genomes];0.80[ASN][1000 genomes]
rs2663532	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2663536	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2663540	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2663542	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2663557	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34013374	0.80[ASN][1000 genomes]
rs35111245	0.81[ASN][1000 genomes]
rs35372376	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs35551186	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs35573737	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36004063	0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3784304	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3825797	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3825798	0.90[AFR][1000 genomes];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4142324	0.83[ASN][1000 genomes]
rs57324163	0.81[ASN][1000 genomes]
rs59486015	0.85[AFR][1000 genomes]
rs67889301	0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs71426053	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7170036	0.91[ASN][1000 genomes]
rs7170302	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7170310	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7176498	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7179527	0.85[AFR][1000 genomes]
rs8043017	0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs8182062	0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:15 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	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
2	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
3	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
4	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
5	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
6	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
7	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
8	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
9	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
10	nsv529339	chr15:51048579-51270372	Strong transcription Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Enhancers Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
11	nsv516168	chr15:51114437-51217361	Enhancers Active TSS Strong transcription Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
12	nsv428636	chr15:51154834-51298044	Active TSS Strong transcription Weak transcription Flanking Active TSS ZNF genes & repeats Enhancers Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
13	nsv569403	chr15:51191421-51304373	Enhancers Weak transcription Active TSS Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers 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	20 gene(s)	inside rSNPs	diseases
14	nsv1038778	chr15:51196641-51356728	Enhancers Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
15	nsv904214	chr15:51204364-51535192	Strong transcription Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:51201600-51212000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr15:51201600-51243200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr15:51201600-51245000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr15:51201800-51205000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
5	chr15:51201800-51205000	Weak transcription	Placenta Amnion	Placenta Amnion
6	chr15:51201800-51208200	Weak transcription	Brain Anterior Caudate	brain
7	chr15:51201800-51209200	Weak transcription	Stomach Mucosa	stomach
8	chr15:51201800-51209600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
9	chr15:51201800-51212600	Weak transcription	Aorta	Aorta
10	chr15:51201800-51223200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
11	chr15:51201800-51230600	Weak transcription	K562	blood
12	chr15:51201800-51242800	Weak transcription	H1 Cell Line	embryonic stem cell
13	chr15:51201800-51248400	Weak transcription	Colonic Mucosa	Colon
14	chr15:51201800-51271600	Weak transcription	H9 Cell Line	embryonic stem cell
15	chr15:51202000-51205000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr15:51202000-51207000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
17	chr15:51202000-51208200	Weak transcription	Stomach Smooth Muscle	stomach
18	chr15:51202000-51212600	Weak transcription	Psoas Muscle	Psoas
19	chr15:51202000-51212800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
20	chr15:51202000-51217200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
21	chr15:51202000-51219000	Weak transcription	Right Ventricle	heart
22	chr15:51202200-51204800	Enhancers	Primary hematopoietic stem cells short term culture	blood
23	chr15:51202200-51204800	Weak transcription	Fetal Intestine Large	intestine
24	chr15:51202200-51204800	Weak transcription	Fetal Intestine Small	intestine
25	chr15:51202200-51205200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
26	chr15:51202200-51205400	Weak transcription	Fetal Lung	lung
27	chr15:51202200-51207200	Weak transcription	Fetal Kidney	kidney
28	chr15:51202200-51210000	Weak transcription	Fetal Brain Female	brain
29	chr15:51202200-51210000	Weak transcription	Thymus	Thymus
30	chr15:51202200-51214200	Weak transcription	Rectal Smooth Muscle	rectum
31	chr15:51202200-51222600	Weak transcription	Brain Cingulate Gyrus	brain
32	chr15:51202400-51204800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
33	chr15:51202400-51205000	Weak transcription	Fetal Brain Male	brain
34	chr15:51202400-51205000	Weak transcription	Fetal Thymus	thymus
35	chr15:51202400-51209800	Weak transcription	Brain Inferior Temporal Lobe	brain
36	chr15:51202400-51213600	Weak transcription	Brain Germinal Matrix	brain
37	chr15:51202600-51209800	Weak transcription	Cortex derived primary cultured neurospheres	brain
38	chr15:51202600-51210000	Weak transcription	Right Atrium	heart
39	chr15:51202600-51212000	Weak transcription	Spleen	Spleen
40	chr15:51202600-51214200	Weak transcription	Esophagus	oesophagus
41	chr15:51202600-51236800	Weak transcription	Small Intestine	intestine
42	chr15:51202600-51241800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
43	chr15:51202600-51242800	Weak transcription	Gastric	stomach
44	chr15:51202800-51205200	Weak transcription	A549	lung
45	chr15:51202800-51208800	Weak transcription	Brain Angular Gyrus	brain
46	chr15:51202800-51209400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
47	chr15:51202800-51212600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
48	chr15:51202800-51218600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
49	chr15:51202800-51219200	Weak transcription	Brain Hippocampus Middle	brain
50	chr15:51202800-51219400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links