Variant report

Variant	rs10152754
Chromosome Location	chr15:49947638-49947639
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:49911697..49913834-chr15:49946884..49949129,2	K562	blood:
2	chr15:49936169..49939153-chr15:49946646..49948297,2	K562	blood:
3	chr15:49939950..49944441-chr15:49944621..49947997,7	K562	blood:
4	chr15:49912005..49914602-chr15:49946758..49948648,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-DTWD1-1	chr15:49944336-49948429	ENSG00000261597.1

Variant related genes	Relation type
ENSG00000261597	Chromatin interaction
ENSG00000104047	Chromatin interaction
ENSG00000166262	Chromatin interaction

Extended variants
information (count: 76 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10047970	0.82[CEU][hapmap]
rs1048348	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11070696	0.83[CHB][hapmap];0.91[JPT][hapmap]
rs11070697	0.85[ASN][1000 genomes]
rs11070708	0.86[AFR][1000 genomes];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11070713	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11630629	0.83[CHB][hapmap];0.90[JPT][hapmap]
rs11632201	0.90[ASN][1000 genomes]
rs11632674	0.82[CEU][hapmap];0.87[CHB][hapmap];0.91[JPT][hapmap];0.80[EUR][1000 genomes]
rs11634751	0.82[CEU][hapmap];0.87[CHB][hapmap];0.91[JPT][hapmap]
rs11636378	0.87[CHB][hapmap];0.91[JPT][hapmap]
rs11857320	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12440323	0.82[CEU][hapmap];0.83[CHB][hapmap];0.91[JPT][hapmap]
rs12441304	0.82[CEU][hapmap];0.87[CHB][hapmap];0.91[JPT][hapmap]
rs12594670	0.86[ASN][1000 genomes]
rs12899680	0.86[ASN][1000 genomes]
rs12905627	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1395902	0.80[EUR][1000 genomes]
rs1507618	0.81[AFR][1000 genomes]
rs1532955	0.82[CEU][hapmap];0.87[CHB][hapmap];0.91[JPT][hapmap]
rs1588130	0.82[CEU][hapmap];0.87[CHB][hapmap];0.91[JPT][hapmap]
rs1605481	0.82[CEU][hapmap];0.87[CHB][hapmap];0.91[JPT][hapmap]
rs1605484	0.84[AFR][1000 genomes];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17482113	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1874615	0.82[CEU][hapmap];0.87[CHB][hapmap];0.91[JPT][hapmap]
rs1911614	0.82[CEU][hapmap];0.87[CHB][hapmap];0.91[JPT][hapmap];0.80[EUR][1000 genomes]
rs2413953	0.82[CEU][hapmap];0.83[CHB][hapmap];0.91[JPT][hapmap]
rs2413954	0.82[CEU][hapmap];0.87[CHB][hapmap];0.91[JPT][hapmap]
rs2413959	0.82[CEU][hapmap]
rs2601020	0.84[EUR][1000 genomes]
rs28562087	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28788326	0.80[EUR][1000 genomes]
rs28842346	0.80[EUR][1000 genomes]
rs28871940	0.80[EUR][1000 genomes]
rs2899433	0.82[CEU][hapmap];0.83[CHB][hapmap];0.91[JPT][hapmap]
rs2899448	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4303431	0.82[CEU][hapmap];0.87[CHB][hapmap];0.91[JPT][hapmap]
rs4350524	0.82[CEU][hapmap];0.87[CHB][hapmap];0.86[JPT][hapmap]
rs4775814	0.82[CEU][hapmap];0.87[CHB][hapmap];0.91[JPT][hapmap]
rs4775815	0.82[CEU][hapmap];0.87[CHB][hapmap];0.91[JPT][hapmap]
rs4775817	0.82[CEU][hapmap];0.87[CHB][hapmap];0.91[JPT][hapmap];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs56692783	0.80[EUR][1000 genomes]
rs62021586	0.80[EUR][1000 genomes]
rs62021587	0.80[EUR][1000 genomes]
rs6493371	0.82[CEU][hapmap];0.83[CHB][hapmap];0.91[JPT][hapmap]
rs6493376	0.82[CEU][hapmap];0.87[CHB][hapmap];0.91[JPT][hapmap]
rs692008	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7161744	0.86[ASN][1000 genomes]
rs7162800	0.86[CHB][hapmap]
rs7163740	0.86[AFR][1000 genomes];0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7164283	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7166202	0.82[CEU][hapmap];0.87[CHB][hapmap];0.91[JPT][hapmap];0.80[EUR][1000 genomes]
rs7166498	0.82[CEU][hapmap];0.83[CHB][hapmap];0.91[JPT][hapmap]
rs7167041	0.82[CEU][hapmap];0.83[CHB][hapmap];0.91[JPT][hapmap]
rs7167429	0.86[CEU][hapmap];0.87[CHB][hapmap];0.91[JPT][hapmap];0.80[EUR][1000 genomes]
rs7169799	0.85[ASN][1000 genomes]
rs7170426	0.82[CEU][hapmap];0.83[CHB][hapmap];0.91[JPT][hapmap]
rs7176306	0.92[YRI][hapmap];0.86[AFR][1000 genomes]
rs7178143	0.82[CEU][hapmap];0.87[CHB][hapmap];0.91[JPT][hapmap]
rs7178468	0.82[CEU][hapmap];0.87[CHB][hapmap];0.91[JPT][hapmap]
rs7181916	0.80[EUR][1000 genomes]
rs7182072	0.80[EUR][1000 genomes]
rs731051	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs733097	0.82[CEU][hapmap];0.87[CHB][hapmap];0.91[JPT][hapmap]
rs8027730	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.86[ASN][1000 genomes]
rs8033476	1.00[YRI][hapmap];0.95[AFR][1000 genomes]
rs8035468	0.82[CEU][hapmap];0.87[CHB][hapmap];0.91[JPT][hapmap]
rs8041493	0.80[EUR][1000 genomes]
rs925103	0.94[AFR][1000 genomes];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs962710	0.87[AFR][1000 genomes];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9635335	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs965134	0.82[CEU][hapmap];0.87[CHB][hapmap];0.87[JPT][hapmap]
rs9972329	0.82[CEU][hapmap];0.83[CHB][hapmap];0.91[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv431388	chr15:49835663-49997483	Flanking Active TSS Strong transcription ZNF genes & repeats Weak transcription Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
2	nsv1044277	chr15:49921547-50702386	Enhancers Active TSS Weak transcription Strong transcription Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	107 gene(s)	inside rSNPs	diseases
3	nsv542380	chr15:49921547-50702386	Enhancers Strong transcription Weak transcription Genic enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	107 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:49946600-49949000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
2	chr15:49946600-49949000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

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