Variant report

Variant	rs1560968
Chromosome Location	chr15:33745900-33745901
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 53 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs1155606	0.95[CHB][hapmap];0.85[JPT][hapmap];0.91[ASN][1000 genomes]
rs1435112	0.89[CEU][hapmap];0.80[GIH][hapmap];0.91[MEX][hapmap];0.86[TSI][hapmap];0.82[AMR][1000 genomes]
rs1435116	0.93[CEU][hapmap];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1465739	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1878298	0.91[ASW][hapmap];0.85[CEU][hapmap];0.91[CHB][hapmap];0.88[CHD][hapmap];0.81[JPT][hapmap];0.80[MKK][hapmap];0.83[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs1878299	0.91[CHB][hapmap];0.81[JPT][hapmap];0.90[ASN][1000 genomes]
rs1878303	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2033610	0.89[CEU][hapmap];0.91[MEX][hapmap];0.91[TSI][hapmap];0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2082753	0.93[CEU][hapmap];0.82[GIH][hapmap];0.95[MEX][hapmap];0.84[TSI][hapmap]
rs2082755	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2164249	0.89[CEU][hapmap];0.91[MEX][hapmap];0.89[TSI][hapmap];0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2245508	0.93[CEU][hapmap];0.80[GIH][hapmap];0.87[TSI][hapmap];0.86[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2339275	0.93[ASN][1000 genomes]
rs2459470	0.95[CHB][hapmap];0.85[JPT][hapmap];0.86[AMR][1000 genomes];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2572169	0.85[CEU][hapmap];0.80[GIH][hapmap];0.86[MEX][hapmap];0.84[TSI][hapmap]
rs2572177	0.81[JPT][hapmap]
rs2572178	0.82[AMR][1000 genomes]
rs2572186	0.93[CEU][hapmap];0.81[JPT][hapmap];0.80[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2572192	0.96[CEU][hapmap];0.95[CHB][hapmap];0.85[JPT][hapmap];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2572193	0.91[ASN][1000 genomes]
rs2596156	0.91[ASW][hapmap];0.85[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];0.81[JPT][hapmap];0.82[MKK][hapmap];0.80[TSI][hapmap];0.85[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs2596157	0.95[CHB][hapmap];0.81[JPT][hapmap];0.92[ASN][1000 genomes]
rs2596159	0.89[CEU][hapmap];0.91[MEX][hapmap];0.91[TSI][hapmap];0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2596160	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2596162	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2596163	0.92[CEU][hapmap];0.95[MEX][hapmap];0.93[TSI][hapmap];0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2596164	0.89[CEU][hapmap];0.91[MEX][hapmap];0.91[TSI][hapmap];0.81[EUR][1000 genomes]
rs2596166	0.81[CEU][hapmap]
rs2596167	0.93[CEU][hapmap];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2596236	0.81[CHB][hapmap];0.83[CHD][hapmap];0.81[GIH][hapmap];0.81[ASN][1000 genomes]
rs2676017	1.00[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2676025	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2676085	1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[JPT][hapmap];0.98[ASN][1000 genomes]
rs2676086	0.95[CHB][hapmap];1.00[CHD][hapmap];0.90[JPT][hapmap];0.91[MEX][hapmap];0.87[TSI][hapmap];0.87[AMR][1000 genomes];0.80[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2676087	0.91[ASW][hapmap];0.89[CEU][hapmap];0.95[CHB][hapmap];0.97[CHD][hapmap];0.89[GIH][hapmap];0.85[JPT][hapmap];0.81[LWK][hapmap];0.82[MEX][hapmap];0.84[MKK][hapmap];0.95[TSI][hapmap];0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2676088	0.95[CHB][hapmap];0.90[JPT][hapmap];0.85[AMR][1000 genomes];0.80[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2676089	0.95[CHB][hapmap];0.85[JPT][hapmap];0.87[AMR][1000 genomes];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2676090	1.00[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2676094	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2676096	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2676097	0.81[EUR][1000 genomes]
rs2676098	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7165065	0.81[CHB][hapmap];0.83[CHD][hapmap]
rs892780	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs892782	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs892783	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs930300	0.95[CHB][hapmap];0.85[JPT][hapmap];0.91[ASN][1000 genomes]
rs930302	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv533346	chr15:33469439-33809641	Enhancers Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv832964	chr15:33608771-33784018	Enhancers Flanking Active TSS Bivalent Enhancer Weak transcription ZNF genes & repeats Active TSS Strong transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
3	nsv1043046	chr15:33714908-34321330	Enhancers Flanking Active TSS Strong transcription Weak transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
4	esv34041	chr15:33720726-33871487	Weak transcription Enhancers Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Bivalent/Poised TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
5	esv34037	chr15:33732616-34049083	Enhancers ZNF genes & repeats Strong transcription Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:33732800-33746600	Weak transcription	Aorta	Aorta
2	chr15:33733400-33746000	Weak transcription	Brain Anterior Caudate	brain
3	chr15:33741600-33765400	Weak transcription	Fetal Muscle Leg	muscle
4	chr15:33742200-33748800	Weak transcription	Esophagus	oesophagus
5	chr15:33743200-33746800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr15:33744400-33746200	Weak transcription	Psoas Muscle	Psoas
7	chr15:33744400-33750400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
8	chr15:33744400-33750400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
9	chr15:33744600-33750400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr15:33745000-33746200	Enhancers	Duodenum Smooth Muscle	Duodenum
11	chr15:33745000-33747400	Enhancers	Breast Myoepithelial Primary Cells	Breast
12	chr15:33745400-33747600	Enhancers	Fetal Kidney	kidney
13	chr15:33745600-33746200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
14	chr15:33745600-33746400	Enhancers	Brain Angular Gyrus	brain
15	chr15:33745800-33748600	Enhancers	Fetal Adrenal Gland	Adrenal Gland

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