Variant report

Variant	rs2663548
Chromosome Location	chr15:51116593-51116594
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:51056319..51059244-chr15:51115290..51117379,3	MCF-7	breast:
2	chr15:51110106..51113018-chr15:51115605..51118067,2	K562	blood:
3	chr15:51056530..51059646-chr15:51114717..51121092,7	MCF-7	breast:

Variant related genes	Relation type
ENSG00000138600	Chromatin interaction

Extended variants
information (count: 131 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:105)

rs_ID	r²[population]
rs10744956	0.86[CHB][hapmap];0.82[JPT][hapmap]
rs11070824	0.87[CHB][hapmap];0.95[JPT][hapmap]
rs1147128	0.80[ASN][1000 genomes]
rs1147129	0.92[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.80[ASN][1000 genomes]
rs1147130	0.80[ASN][1000 genomes]
rs1147131	0.93[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.82[ASN][1000 genomes]
rs1147133	0.83[ASN][1000 genomes]
rs1147135	0.83[ASN][1000 genomes]
rs1147136	0.83[ASN][1000 genomes]
rs1147139	0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11635015	0.91[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap]
rs11635102	0.91[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap]
rs12438343	0.93[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.81[ASN][1000 genomes]
rs12440387	0.95[CHB][hapmap]
rs12595034	0.80[ASN][1000 genomes]
rs12595754	0.87[ASN][1000 genomes]
rs1276854	0.96[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12898208	0.80[ASN][1000 genomes]
rs12898530	0.80[ASN][1000 genomes]
rs12904382	0.86[CHB][hapmap];1.00[JPT][hapmap]
rs12906866	0.93[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.86[YRI][hapmap]
rs12909505	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12915330	0.84[ASN][1000 genomes]
rs1472946	0.86[CHB][hapmap];0.83[JPT][hapmap]
rs1509423	0.88[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs17703090	0.87[CHB][hapmap];0.83[JPT][hapmap]
rs2127366	0.80[ASN][1000 genomes]
rs2127367	0.81[ASN][1000 genomes]
rs2127368	0.93[CEU][hapmap];1.00[CHB][hapmap];0.96[JPT][hapmap];0.81[ASN][1000 genomes]
rs2170011	0.81[ASN][1000 genomes]
rs2249535	0.92[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.86[YRI][hapmap];0.80[ASN][1000 genomes]
rs2306331	0.92[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.80[ASN][1000 genomes]
rs2414058	0.86[ASN][1000 genomes]
rs2414078	0.80[ASN][1000 genomes]
rs2414079	0.80[ASN][1000 genomes]
rs2414081	0.93[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.80[ASN][1000 genomes]
rs2614763	0.97[AFR][1000 genomes];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2614776	0.93[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2614779	0.93[CEU][hapmap];1.00[CHB][hapmap];0.96[JPT][hapmap];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2614780	0.92[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2614781	0.93[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.87[YRI][hapmap];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2614782	0.83[ASN][1000 genomes]
rs2614784	0.80[ASN][1000 genomes]
rs2614789	0.80[ASN][1000 genomes]
rs2614790	0.93[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.82[YRI][hapmap];0.80[ASN][1000 genomes]
rs2614791	0.86[CHB][hapmap];0.83[JPT][hapmap]
rs2614792	0.96[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.80[ASN][1000 genomes]
rs2614794	0.93[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.87[YRI][hapmap];0.80[ASN][1000 genomes]
rs2619686	0.93[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.87[YRI][hapmap];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2619687	0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2619688	0.83[ASN][1000 genomes]
rs2619691	0.91[CHB][hapmap];0.82[JPT][hapmap]
rs2619693	0.81[ASN][1000 genomes]
rs2663533	0.93[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2663535	0.96[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2663537	0.82[ASN][1000 genomes]
rs2663538	0.93[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.82[ASN][1000 genomes]
rs2663541	0.83[ASN][1000 genomes]
rs2663543	0.83[ASN][1000 genomes]
rs2663544	0.83[ASN][1000 genomes]
rs2663545	0.83[ASN][1000 genomes]
rs2663546	0.83[ASN][1000 genomes]
rs2663550	0.97[AFR][1000 genomes];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2663551	0.96[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2663553	0.93[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.80[ASN][1000 genomes]
rs2663554	0.92[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.80[ASN][1000 genomes]
rs2663555	0.80[ASN][1000 genomes]
rs2663556	0.96[CEU][hapmap];1.00[CHB][hapmap];0.96[JPT][hapmap];0.87[YRI][hapmap];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs28621809	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3743045	0.86[CHB][hapmap];1.00[JPT][hapmap]
rs3784301	0.82[CEU][hapmap];0.86[CHB][hapmap];0.86[JPT][hapmap]
rs3784302	0.86[JPT][hapmap]
rs3784303	0.93[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap]
rs4438254	0.80[ASN][1000 genomes]
rs4775904	0.95[ASN][1000 genomes]
rs4775910	0.87[CHB][hapmap];0.83[JPT][hapmap]
rs60454952	0.83[ASN][1000 genomes]
rs62018857	0.93[AFR][1000 genomes];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6493456	0.86[ASN][1000 genomes]
rs6493457	0.84[ASN][1000 genomes]
rs6493469	0.92[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.80[ASN][1000 genomes]
rs714784	0.86[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs7162209	0.91[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap]
rs7168385	0.93[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.81[ASN][1000 genomes]
rs7168846	0.92[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.81[ASN][1000 genomes]
rs7169888	0.81[ASN][1000 genomes]
rs7170365	0.80[ASN][1000 genomes]
rs7170675	0.89[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.80[ASN][1000 genomes]
rs7171085	0.81[ASN][1000 genomes]
rs7177267	0.81[ASN][1000 genomes]
rs7180258	0.93[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap]
rs7181051	0.80[ASN][1000 genomes]
rs7181201	0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap]
rs7181997	0.83[ASN][1000 genomes]
rs7182957	0.93[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap]
rs7183434	0.85[ASN][1000 genomes]
rs8024428	0.81[ASN][1000 genomes]
rs8029110	0.94[ASN][1000 genomes]
rs8029155	0.92[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.80[ASN][1000 genomes]
rs8029369	0.93[CEU][hapmap];1.00[CHB][hapmap];0.96[JPT][hapmap];0.81[ASN][1000 genomes]
rs8030214	0.91[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap]
rs8030680	0.95[ASN][1000 genomes]
rs8031702	0.92[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.86[YRI][hapmap];0.80[ASN][1000 genomes]
rs8033776	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs8035358	0.91[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:26 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	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
2	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
3	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
4	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
5	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
6	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
7	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
8	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
9	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
10	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
11	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
12	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
13	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
14	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
15	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
16	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
17	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
18	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
19	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
20	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
21	nsv904212	chr15:50979738-51132170	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
22	nsv904213	chr15:51011402-51119731	Strong transcription Weak transcription Flanking Active TSS Genic enhancers Enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
23	nsv457137	chr15:51019117-51117524	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
24	nsv569402	chr15:51019117-51117524	Active TSS Enhancers Flanking Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
25	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
26	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

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:51108800-51116600	Weak transcription	Fetal Lung	lung
2	chr15:51110400-51120800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
3	chr15:51110600-51117600	Weak transcription	HSMMtube	muscle
4	chr15:51112200-51117400	Weak transcription	Muscle Satellite Cultured Cells	--
5	chr15:51112200-51117400	Weak transcription	HSMM	muscle
6	chr15:51112200-51120600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr15:51115200-51116800	Enhancers	HUES48 Cell Line	embryonic stem cell
8	chr15:51115400-51117800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
9	chr15:51116000-51116800	Enhancers	Fetal Brain Male	brain
10	chr15:51116200-51121000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
11	chr15:51116400-51121000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
12	chr15:51116400-51121000	Weak transcription	HUES64 Cell Line	embryonic stem cell

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